Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013410.1 Kokia drynarioides strain JFW-HI SEQ_128435, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 180568
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1737 original size:14 final size:14
Alignment explanation
Indices: 1718--1744 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1708 AGAAATCGGG
1718 TTAGTTGGAAAATT
1 TTAGTTGGAAAATT
1732 TTAGTTGGAAAAT
1 TTAGTTGGAAAAT
1745 CTCGATATTT
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:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (14 bp):
TTAGTTGGAAAATT
Found at i:2402 original size:59 final size:58
Alignment explanation
Indices: 2339--2656 Score: 300
Period size: 59 Copynumber: 5.4 Consensus size: 58
2329 CTCGAGGATG
*
2339 AAATGGTAATTTTTGGAAAATTCGGGGTT-AAAATGGGATTTTTAGAAGTTTGGCGGTAA
1 AAATGG-AATTTTTGGAAATTTCGGGGTTAAAAATGGGATTTTTAGAAGTTTGG-GGTAA
** * * *
2398 AAATGGACCTTTT-GAAAGTTTTGGGGTTAAAAATGGGATTTTTGGTAGTTTGGGGGTAA
1 AAATGGAATTTTTGGAAA-TTTCGGGGTTAAAAATGGGATTTTTAGAAGTTT-GGGGTAA
* ** *
2457 AAATGGAATTTTTGGAAGTTTTAGGGTTAAAAATTGGATTTTTAGAAGTTTGAGGGTAA
1 AAATGGAATTTTTGGAAATTTCGGGGTTAAAAATGGGATTTTTAGAAGTTTG-GGGTAA
* * ** * *
2516 AAATGGGATTTTTAGAAGCTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTAGGGTTAA
1 AAATGGAATTTTTGGAAATTTCGGGGTTAAAAATGGGATTTTTAGAAG-TTT-GGGGTAA
** * * * * * *
2576 ATTTTGG-ATTTTTAGAAGTTTCGAGGTTAAAAATTGGATTTTTAAAAGTTCAGGGGTAA
1 A-AATGGAATTTTTGGAAATTTCGGGGTTAAAAATGGGATTTTTAGAAGTT-TGGGGTAA
*
2635 AAATGGGATTTTTGGACAATTT
1 AAATGGAATTTTTGGA-AATTT
2657 AGGGACCTAC
Statistics
Matches: 214, Mismatches: 34, Indels: 21
0.80 0.13 0.08
Matches are distributed among these distances:
57 4 0.02
58 17 0.08
59 135 0.63
60 54 0.25
61 4 0.02
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (58 bp):
AAATGGAATTTTTGGAAATTTCGGGGTTAAAAATGGGATTTTTAGAAGTTTGGGGTAA
Found at i:2429 original size:30 final size:30
Alignment explanation
Indices: 2362--2648 Score: 238
Period size: 30 Copynumber: 9.7 Consensus size: 30
2352 TGGAAAATTC
2362 GGGGTT-AAAATGGGATTTTT-AGAAG-TTT
1 GGGGTTAAAAATGGGATTTTTGA-AAGTTTT
*
2390 GGCGG-TAAAAAT-GGACCTTTTGAAAGTTTT
1 GG-GGTTAAAAATGGGA-TTTTTGAAAGTTTT
**
2420 GGGGTTAAAAATGGGATTTTTGGTAG-TTT
1 GGGGTTAAAAATGGGATTTTTGAAAGTTTT
* * *
2449 GGGGGTAAAAATGGAATTTTTGGAAGTTTT
1 GGGGTTAAAAATGGGATTTTTGAAAGTTTT
* *
2479 AGGGTTAAAAATTGGATTTTT-AGAAG-TTT
1 GGGGTTAAAAATGGGATTTTTGA-AAGTTTT
* *
2508 GAGGG-TAAAAATGGGATTTTT-AGAAGCTTC
1 G-GGGTTAAAAATGGGATTTTTGA-AAGTTTT
*
2538 GGGGTTAAAAATGGGATTTTTGGAAGTTTT
1 GGGGTTAAAAATGGGATTTTTGAAAGTTTT
* ** * *
2568 AGGGTTAAATTTTGGATTTTT-AGAAGTTTC
1 GGGGTTAAAAATGGGATTTTTGA-AAGTTTT
* * * **
2598 GAGGTTAAAAATTGGATTTTTAAAAGTTCA
1 GGGGTTAAAAATGGGATTTTTGAAAGTTTT
2628 GGGG-TAAAAATGGGATTTTTG
1 GGGGTTAAAAATGGGATTTTTG
2649 GACAATTTAG
Statistics
Matches: 211, Mismatches: 33, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
28 6 0.03
29 83 0.39
30 118 0.56
31 4 0.02
ACGTcount: A:0.30, C:0.02, G:0.29, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAAATGGGATTTTTGAAAGTTTT
Found at i:2660 original size:89 final size:87
Alignment explanation
Indices: 2359--2650 Score: 349
Period size: 89 Copynumber: 3.3 Consensus size: 87
2349 TTTTGGAAAA
* * * *
2359 TTCGGGGTTAAAATGGGATTTTTAGAAG-TTT-GGCGGTAAAAA-TGGACCTTTT-GAAAGTTTT
1 TTCGGGGTAAAAATGGGATTTTTGGAAGTTTTAGG-GTTAAAAATTGGA-TTTTTAG-AAG-TTT
* * *
2420 GGGGTTAAAAATGGGATTTTTGGTAG
62 GAGGTTAAAAATGGGATTTTTAGAAG
* *
2446 TTTGGGGGTAAAAATGGAATTTTTGGAAGTTTTAGGGTTAAAAATTGGATTTTTAGAAGTTTGAG
1 -TTCGGGGTAAAAATGGGATTTTTGGAAGTTTTAGGGTTAAAAATTGGATTTTTAGAAGTTTGAG
*
2511 GGTAAAAATGGGATTTTTAGAAG
65 GTTAAAAATGGGATTTTTAGAAG
**
2534 CTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTTAGGGTTAAATTTTGGATTTTTAGAAGTTTCG
1 -TTCGGGG-TAAAAATGGGATTTTTGGAAGTTTTAGGGTTAAAAATTGGATTTTTAGAAGTTT-G
* *
2599 AGGTTAAAAATTGGATTTTTAAAAG
63 AGGTTAAAAATGGGATTTTTAGAAG
2624 TTCAGGGGTAAAAATGGGATTTTTGGA
1 TTC-GGGGTAAAAATGGGATTTTTGGA
2651 CAATTTAGGG
Statistics
Matches: 179, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
88 55 0.31
89 90 0.50
90 34 0.19
ACGTcount: A:0.30, C:0.03, G:0.29, T:0.38
Consensus pattern (87 bp):
TTCGGGGTAAAAATGGGATTTTTGGAAGTTTTAGGGTTAAAAATTGGATTTTTAGAAGTTTGAGG
TTAAAAATGGGATTTTTAGAAG
Found at i:3746 original size:14 final size:14
Alignment explanation
Indices: 3729--3775 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
3719 AATTGTTATG
*
3729 ATTATTATTAATAT
1 ATTATTAATAATAT
*
3743 ATTAATAATAATACT
1 ATTATTAATAATA-T
3758 ATTA-TAATAAT-T
1 ATTATTAATAATAT
3770 ATTATT
1 ATTATT
3776 GCCATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 18 0.62
15 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTATTAATAATAT
Found at i:4541 original size:18 final size:18
Alignment explanation
Indices: 4520--4616 Score: 94
Period size: 18 Copynumber: 5.5 Consensus size: 18
4510 ATTTATTTTA
*
4520 AATTTTAAATTTGAAAAT
1 AATTTTAAATTTTAAAAT
* *
4538 AATTTTAAA-CTTAAATT
1 AATTTTAAATTTTAAAAT
*
4555 AAATTTAAATTTTAAAAT
1 AATTTTAAATTTTAAAAT
*
4573 AAATTTAAAATTTTAAACA-
1 -AATTTTAAATTTTAAA-AT
4592 AA-TTT-AATTTTAAAAT
1 AATTTTAAATTTTAAAAT
*
4608 AAATTTAAA
1 AATTTTAAA
4617 GGGAGTATGA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
15 1 0.02
16 11 0.17
17 18 0.28
18 19 0.30
19 14 0.22
20 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
AATTTTAAATTTTAAAAT
Found at i:4565 original size:35 final size:36
Alignment explanation
Indices: 4517--4616 Score: 116
Period size: 35 Copynumber: 2.8 Consensus size: 36
4507 TTTATTTATT
*
4517 TTAAATTTTAAATTTGAAAATAATTTTAAA-CTTAAA
1 TTAAA-TTTAAATTTTAAAATAATTTTAAATCTTAAA
* *
4553 TTAAATTTAAATTTTAAAATAAATTTAAAATTTTAAA
1 TTAAATTTAAATTTTAAAAT-AATTTTAAATCTTAAA
* *
4590 -CAAATTT-AATTTTAAAATAAATTTAAA
1 TTAAATTTAAATTTTAAAATAATTTTAAA
4617 GGGAGTATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
34 7 0.12
35 25 0.45
36 19 0.34
37 5 0.09
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (36 bp):
TTAAATTTAAATTTTAAAATAATTTTAAATCTTAAA
Found at i:5142 original size:35 final size:37
Alignment explanation
Indices: 5103--5183 Score: 94
Period size: 39 Copynumber: 2.2 Consensus size: 37
5093 GACTATATAT
* *
5103 CGATGAGCGTTAGGTGC-ATT-TTACTTCAGACGTTA
1 CGATGAGCGCTAGGCGCAATTATTACTTCAGACGTTA
* *
5138 CGATGAGTGCTAGGCGCAAATTAATTACTTCAGACGTTT
1 CGATGAGCGCTAGGCGC-AATT-ATTACTTCAGACGTTA
5177 CGATGAG
1 CGATGAG
5184 GCATTGGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 14 0.37
37 3 0.08
39 21 0.55
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (37 bp):
CGATGAGCGCTAGGCGCAATTATTACTTCAGACGTTA
Found at i:5390 original size:118 final size:118
Alignment explanation
Indices: 5138--5392 Score: 359
Period size: 118 Copynumber: 2.2 Consensus size: 118
5128 TCAGACGTTA
* * * * *
5138 CGATGAGTGCTAGGCGCAAATTAATTACTTCAGACGTTTCGATGAGGCATTGGGTGCCAAATGGA
1 CGATGAGCGCTAGGCGCAAAGTAATTACTTCAGACATTTCGATGAAGCACTGGGTGCCAAATGGA
* * *
5203 TACTTCGACTACGTGTCGATGAGTGCTGGGCACAATTTTTACTTCGGTTATAC
66 TACTTCGACTACGTGTCGATGAGTGCTGGGCACAATTTTTACTACAGTCATAC
* *
5256 CGATGACCGTTAGGCGCAAAGTAATTACTTCAGACA-TTCTGATGAAGCACTGGGTGCCAAATGG
1 CGATGAGCGCTAGGCGCAAAGTAATTACTTCAGACATTTC-GATGAAGCACTGGGTGCCAAATGG
* * * *
5320 TTATTTCGACTATGTGTCGATGAGTGCTGGGTACAATTTTTACTACAGTCATAC
65 ATACTTCGACTACGTGTCGATGAGTGCTGGGCACAATTTTTACTACAGTCATAC
*
5374 CGATGAGCGCTGGGCGCAA
1 CGATGAGCGCTAGGCGCAA
5393 TCTCTTTTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
117 3 0.03
118 116 0.97
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (118 bp):
CGATGAGCGCTAGGCGCAAAGTAATTACTTCAGACATTTCGATGAAGCACTGGGTGCCAAATGGA
TACTTCGACTACGTGTCGATGAGTGCTGGGCACAATTTTTACTACAGTCATAC
Found at i:5758 original size:2 final size:2
Alignment explanation
Indices: 5751--5776 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5741 TTGAATGTGA
5751 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5777 GTATGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5781 original size:4 final size:4
Alignment explanation
Indices: 5774--5808 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
5764 TATATATATA
5774 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
5809 TATTGAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:12019 original size:26 final size:26
Alignment explanation
Indices: 11989--12041 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11979 TGCTAAACCT
11989 TAAGATGAGGCAATTTGTTGTTGGCA
1 TAAGATGAGGCAATTTGTTGTTGGCA
12015 TAAGATGAGGCAATTTGTTGTTGGCA
1 TAAGATGAGGCAATTTGTTGTTGGCA
12041 T
1 T
12042 CTTGTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.30, T:0.36
Consensus pattern (26 bp):
TAAGATGAGGCAATTTGTTGTTGGCA
Found at i:12427 original size:7 final size:7
Alignment explanation
Indices: 12417--12443 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12407 ACAAAAGGGC
12417 TTAATTT
1 TTAATTT
12424 TTAATTT
1 TTAATTT
12431 TTAATTT
1 TTAATTT
12438 TTAATT
1 TTAATT
12444 ATAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:13923 original size:11 final size:12
Alignment explanation
Indices: 13890--13923 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
13880 AATAAAAGTA
13890 ATATTAATTAA-
1 ATATTAATTAAT
13901 ATATTAATTAAT
1 ATATTAATTAAT
13913 ATATT-ATTAAT
1 ATATTAATTAAT
13924 TTATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTAATTAAT
Found at i:13939 original size:28 final size:26
Alignment explanation
Indices: 13891--13961 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 26
13881 ATAAAAGTAA
*
13891 TATTAATTAAATATTAATTAATATAT
1 TATTAATTAAAAATTAATTAATATAT
*
13917 TATTAATTTATAAAATTATTTAATATAAT
1 TATTAA-TTA-AAAATTAATTAATAT-AT
*
13946 TGAATAAATTAAAAAT
1 T--ATTAATTAAAAAT
13962 AGTAAAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 6 0.16
27 3 0.08
28 13 0.35
29 8 0.22
30 3 0.08
31 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (26 bp):
TATTAATTAAAAATTAATTAATATAT
Found at i:17205 original size:16 final size:16
Alignment explanation
Indices: 17184--17223 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
17174 TCTTATTTTT
*
17184 ATATATATACGCAAGC
1 ATATATATACGCAAAC
*
17200 ATATATATATGCAAAC
1 ATATATATACGCAAAC
*
17216 ATACATAT
1 ATATATAT
17224 TGATTTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (16 bp):
ATATATATACGCAAAC
Found at i:22543 original size:5 final size:5
Alignment explanation
Indices: 22535--22584 Score: 66
Period size: 5 Copynumber: 9.6 Consensus size: 5
22525 AAAAAAAGAA
22535 AAAAG AAAAG AAAAG AAAAG AAGAAG AAAAG AAAA- AAGAAG AAAAAG
1 AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AA-AAG -AAAAG
22582 AAA
1 AAA
22585 GTTAAGATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
4 2 0.05
5 29 0.71
6 8 0.20
7 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22553 original size:15 final size:16
Alignment explanation
Indices: 22535--22584 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
22525 AAAAAAAGAA
22535 AAAAGAA-AAGAAAAG
1 AAAAGAAGAAGAAAAG
22550 AAAAGAAGAAGAAAAG
1 AAAAGAAGAAGAAAAG
22566 AAAA-AAGAAGAAAAAG
1 AAAAGAAGAAG-AAAAG
22582 AAA
1 AAA
22585 GTTAAGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAGAAAAG
Found at i:22563 original size:21 final size:20
Alignment explanation
Indices: 22525--22584 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 20
22515 GGGCATCTTT
22525 AAAAAAAGAAAAAAGAAAAGA
1 AAAAAAAG-AAAAAGAAAAGA
*
22546 AAAGAAAAGAAGAAGAAAAGA
1 AAA-AAAAGAAAAAGAAAAGA
22567 AAAAAGAAGAAAAAGAAA
1 AAAAA-AAGAAAAAGAAA
22585 GTTAAGATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 28 0.80
22 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAGAAAAGA
Found at i:23455 original size:10 final size:10
Alignment explanation
Indices: 23440--23473 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
23430 AATTTCACCC
23440 AAAAAAGAAA
1 AAAAAAGAAA
*
23450 AAAAAAGGAA
1 AAAAAAGAAA
23460 AAAAAAGAAA
1 AAAAAAGAAA
23470 AAAA
1 AAAA
23474 TGAGAGGTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:24805 original size:50 final size:50
Alignment explanation
Indices: 24469--24836 Score: 307
Period size: 49 Copynumber: 7.4 Consensus size: 50
24459 TCATTACCAC
* * * * *
24469 GAAGATATGAAGGGAAAGGTTGA-GGCCGTAATGACAAACCCGGTACCTTA
1 GAAGATATGAAGGGAAAGGTT-ACGACCGCAACGACGAACCCGATACCTTA
* * * * * ** * * * * *
24519 AAAGATGTGATGGGAAAGGTTATGGCTACGACAACGAACCTGGTACCAT-
1 GAAGATATGAAGGGAAAGGTTACGACCGCAACGACGAACCCGATACCTTA
* * ** *
24568 GAAGATTTGAAGGGAAAGGTTACGACCGTAACGGTGAACCCGATACCAT-
1 GAAGATATGAAGGGAAAGGTTACGACCGCAACGACGAACCCGATACCTTA
* * *
24617 GAAGATTTGAAGGGAAAGGTTATGACCGCAACGACGAACCCAATACCTTA
1 GAAGATATGAAGGGAAAGGTTACGACCGCAACGACGAACCCGATACCTTA
* * * * *
24667 GAAGATGT-ATGGGAAAGGTTACAACCGCAACGACGAACCCGGTACCAT-
1 GAAGATATGAAGGGAAAGGTTACGACCGCAACGACGAACCCGATACCTTA
* * *
24715 GAAGATTTGAAGGGAAAGGTTACGACCGCAATGACGAACCCGGTACCTTA
1 GAAGATATGAAGGGAAAGGTTACGACCGCAACGACGAACCCGATACCTTA
* * * **
24765 GAACACATGAAGGGAAGGGTTACGACC-CTAACGATAAACCCGATACCTTA
1 GAAGATATGAAGGGAAAGGTTACGACCGC-AACGACGAACCCGATACCTTA
* * *
24815 GAAGATGTGATGGGAAATGTTA
1 GAAGATATGAAGGGAAAGGTTA
24837 AGGCCGTAAT
Statistics
Matches: 255, Mismatches: 58, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
48 7 0.03
49 150 0.59
50 98 0.38
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (50 bp):
GAAGATATGAAGGGAAAGGTTACGACCGCAACGACGAACCCGATACCTTA
Found at i:25235 original size:41 final size:40
Alignment explanation
Indices: 25143--25263 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
25133 AAGTTACATC
* *
25143 ACCAGCCAATCTCTTACCCCGATCATAGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
* * *
25183 ACTATCTAATCTTTTACCCCGATCATGGGGCAGATTTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGA-TTGAAA
*** *
25224 ACCATCCAATCTCTTACCTTAATCATGGGGCGGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
25264 TCACAACCCA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 35 0.51
41 33 0.49
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
Found at i:25283 original size:42 final size:41
Alignment explanation
Indices: 25164--25288 Score: 110
Period size: 41 Copynumber: 3.0 Consensus size: 41
25154 TCTTACCCCG
* * * * ***
25164 ATCATAGGGCAGA-TTGAAAACTATCTAATCTTTTACCCCG
1 ATCATGGGGCAGATTTGAAAACAACCCAATCTTTTACCTTA
* * *
25204 ATCATGGGGCAGATTTGAAAACCATCCAATCTCTTACCTTA
1 ATCATGGGGCAGATTTGAAAACAACCCAATCTTTTACCTTA
*
25245 ATCATGGGGCGGA-TTGAAATCACAACCCAATCTTTTACCCTTA
1 ATCATGGGGCAGATTTGAAA--ACAACCCAATCTTTTA-CCTTA
25288 A
1 A
25289 ACCAAGAGGA
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
40 18 0.26
41 33 0.47
42 13 0.19
43 6 0.09
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (41 bp):
ATCATGGGGCAGATTTGAAAACAACCCAATCTTTTACCTTA
Found at i:26346 original size:66 final size:64
Alignment explanation
Indices: 26261--26399 Score: 147
Period size: 66 Copynumber: 2.1 Consensus size: 64
26251 TATATGCAGG
* * * * * * *
26261 CATATATATATATAGACATAAAT-TCTGATTTTATTCTTTA-TTTATTTATATATATATACGTAT
1 CATATATATATACAAACATAAATAT-TGATTTCATT-TTTATTTTATTCATATACACAT--GTAC
26324 GTA
62 GTA
* *
26327 CATATATATATGCAAACATACATATTGATTTCATTTTTATTTTATTCATATACACATGTACGTA
1 CATATATATATACAAACATAAATATTGATTTCATTTTTATTTTATTCATATACACATGTACGTA
26391 CATATATAT
1 CATATATAT
26400 GTAAATAGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
64 15 0.24
65 4 0.06
66 42 0.68
67 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.47
Consensus pattern (64 bp):
CATATATATATACAAACATAAATATTGATTTCATTTTTATTTTATTCATATACACATGTACGTA
Found at i:32791 original size:27 final size:27
Alignment explanation
Indices: 32732--32794 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
32722 TTTTTGGATT
* * *
32732 GAAAGAGCGTTATTCTGATTTTGTCTC
1 GAAAGAGCATTATTCTGATTCTGGCTC
32759 GAAAGAGCATTATTCTGATTCTGGCTC
1 GAAAGAGCATTATTCTGATTCTGGCTC
32786 -AGAAGAGCA
1 GA-AAGAGCA
32795 AAACTCTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (27 bp):
GAAAGAGCATTATTCTGATTCTGGCTC
Found at i:40400 original size:12 final size:12
Alignment explanation
Indices: 40379--40407 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
40369 GAGATGAAGG
40379 TTTT-GGAGTGT
1 TTTTGGGAGTGT
40390 TTTTGGGAGTGT
1 TTTTGGGAGTGT
40402 TTTTGG
1 TTTTGG
40408 ATGCACGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (12 bp):
TTTTGGGAGTGT
Found at i:51913 original size:17 final size:17
Alignment explanation
Indices: 51891--51934 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
51881 GGCCCAACAG
*
51891 AATTTAAATTTATTGGA
1 AATTTAAATTTATTAGA
*
51908 AATTTAAATTTATTATA
1 AATTTAAATTTATTAGA
51925 AATTTAAATT
1 AATTTAAATT
51935 GAAACTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AATTTAAATTTATTAGA
Found at i:51933 original size:23 final size:22
Alignment explanation
Indices: 51907--51949 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
51897 AATTTATTGG
* *
51907 AAATTTAAATTTATTATAAATTT
1 AAATTGAAACTTATT-TAAATTT
51930 AAATTGAAACTTATTTAAAT
1 AAATTGAAACTTATTTAAAT
51950 AATGTCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
AAATTGAAACTTATTTAAATTT
Found at i:52667 original size:3 final size:3
Alignment explanation
Indices: 52649--52692 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
52639 ATAAGTATAG
*
52649 TAA TAAA TATA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
52693 AGAAAATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:53803 original size:29 final size:31
Alignment explanation
Indices: 53769--53880 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 31
53759 AACTTTACAC
53769 AAAAC-TTCCAAAAATTATATTTTTGACCCT
1 AAAACTTTCCAAAAATTATATTTTTGACCCT
* * * *
53799 -AAACTTTTCAAACATCAT-GTTTTGACCCT
1 AAAACTTTCCAAAAATTATATTTTTGACCCT
*
53828 AAAACTTTCCAAAAATTACA-TTTT-ACCCT
1 AAAACTTTCCAAAAATTATATTTTTGACCCT
** * *
53857 CGAATTTTCC-AAAATTACATTTTT
1 AAAACTTTCCAAAAATTATATTTTT
53881 CACTCGAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
28 9 0.13
29 30 0.45
30 28 0.42
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (31 bp):
AAAACTTTCCAAAAATTATATTTTTGACCCT
Found at i:53906 original size:58 final size:56
Alignment explanation
Indices: 53833--54112 Score: 227
Period size: 58 Copynumber: 4.9 Consensus size: 56
53823 ACCCTAAAAC
*
53833 TTTCCAAAAATTA-CATTTTACCCTCGAATTTTCC-AAAATTACATTTTTCACTCGAA
1 TTTCCAAAAATTACCATTTTACCCTCGAA-TTTCCAAAAATTACATTTTTGAC-CGAA
* * * *
53889 TTTCTCAAAAAAATA-CATTTTCACCCTCGAACTTCCAAAAATTCCCTTTTTGACCATGAA
1 TTTC-C-AAAAATTACCATTTT-ACCCTCGAATTTCCAAAAATTACATTTTTGACC--GAA
* * *
53949 TTTCCAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTTCATTTTTGATCCCGAA
1 TTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTACATTTTTGA--CCGAA
* * * *
54007 CTTTCCAAAAATTACCATTTTACCC-C-ATATGTCCAAAAATTCCA-TTTTCACCTCAAAA
1 -TTTCCAAAAATTACCATTTTACCCTCGA-ATTTCCAAAAATTACATTTTTGA-C-C-GAA
* *
54065 TTTCC-AAAATTACCATTTTACCCCTTG-ATGTCCAAAAA-TACCATTTTT
1 TTTCCAAAAATTACCATTTTA-CCCTCGAATTTCCAAAAATTA-CATTTTT
54113 AACCTCAAAC
Statistics
Matches: 189, Mismatches: 17, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
56 22 0.12
57 28 0.15
58 76 0.40
59 54 0.29
60 9 0.05
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.36
Consensus pattern (56 bp):
TTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTACATTTTTGACCGAA
Found at i:53908 original size:30 final size:28
Alignment explanation
Indices: 53837--54085 Score: 112
Period size: 28 Copynumber: 8.6 Consensus size: 28
53827 TAAAACTTTC
*
53837 CAAAAATTACATTTTACCCTCGAATTTT
1 CAAAAATTACATTTTACACTCGAATTTT
* *
53865 CCAAAATTACATTTTTCACTCGAATTTCT
1 CAAAAATTACATTTTACACTCGAATTT-T
* * * *
53894 CAAAAAAATACATTTTCACCCTCGAACTTC
1 C-AAAAATTACATTTT-ACACTCGAATTTT
* * *
53924 CAAAAATTCCCTTTTTGAC-CAT-GAATTTC
1 CAAAAATT-ACATTTT-ACAC-TCGAATTTT
* * * *
53953 CAAAAATTACCATTTTACCCTCGGATGTC
1 CAAAAATTA-CATTTTACACTCGAATTTT
* ** * *
53982 CAAAAATTTCATTTTTGATCCCGAACTTTC
1 CAAAAATTACATTTTACA-CTCGAA-TTTT
* * *
54012 CAAAAATTACCATTTTAC-C-CCATATGTC
1 CAAAAATTA-CATTTTACACTCGA-ATTTT
* * *
54040 CAAAAATTCCATTTT-CACCTCAAAATTT
1 CAAAAATTACATTTTACA-CTCGAATTTT
*
54068 CCAAAATTACCATTTTAC
1 CAAAAATTA-CATTTTAC
54086 CCCTTGATGT
Statistics
Matches: 167, Mismatches: 37, Indels: 32
0.71 0.16 0.14
Matches are distributed among these distances:
26 1 0.01
27 6 0.04
28 56 0.34
29 56 0.34
30 33 0.20
31 15 0.09
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (28 bp):
CAAAAATTACATTTTACACTCGAATTTT
Found at i:53938 original size:29 final size:27
Alignment explanation
Indices: 53834--54111 Score: 149
Period size: 29 Copynumber: 9.7 Consensus size: 27
53824 CCCTAAAACT
*
53834 TTCCAAAAATTACATTTTACCCTCGAA
1 TTCCAAAAATTCCATTTTACCCTCGAA
* * *
53861 TTTTCC-AAAATTACATTTTTCACTCGAA
1 --TTCCAAAAATTCCATTTTACCCTCGAA
* *
53889 TTTCTCAAAAAAATACATTTTCACCCTCGAA
1 -TTC-C-AAAAATTCCATTTT-ACCCTCGAA
* *
53920 CTTCCAAAAATTCCCTTTTTGACCAT-GAA
1 -TTCCAAAAATT-CCATTTT-ACCCTCGAA
*
53949 TTTCCAAAAATTACCATTTTACCCTCGGA
1 -TTCCAAAAATT-CCATTTTACCCTCGAA
* *
53978 TGTCCAAAAATTTCATTTTTGATCC-CGAA
1 T-TCCAAAAATTCCA-TTTT-ACCCTCGAA
54007 CTTTCCAAAAATTACCATTTTACCC-C-ATA
1 --TTCCAAAAATT-CCATTTTACCCTCGA-A
*
54036 TGTCCAAAAATTCCATTTT-CACCTCAAAA
1 T-TCCAAAAATTCCATTTTAC-CCTC-GAA
*
54065 TTTCC-AAAATTACCATTTTACCCCTTG-A
1 -TTCCAAAAATT-CCATTTTA-CCCTCGAA
*
54093 TGTCCAAAAATACCATTTT
1 T-TCCAAAAATTCCATTTT
54112 TAACCTCAAA
Statistics
Matches: 201, Mismatches: 24, Indels: 49
0.73 0.09 0.18
Matches are distributed among these distances:
26 1 0.00
27 15 0.07
28 57 0.28
29 70 0.35
30 44 0.22
31 14 0.07
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.36
Consensus pattern (27 bp):
TTCCAAAAATTCCATTTTACCCTCGAA
Found at i:54113 original size:29 final size:28
Alignment explanation
Indices: 54010--54111 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
54000 TCCCGAACTT
54010 TCCAAAAATTACCATTTTACCCCAT-ATG
1 TCCAAAAA-TACCATTTTACCCCATGATG
* * ** *
54038 TCCAAAAATTCCATTTTCACCTCAAAATT
1 TCCAAAAATACCATTTT-ACCCCATGATG
* *
54067 TCCAAAATTACCATTTTACCCCTTGATG
1 TCCAAAAATACCATTTTACCCCATGATG
54095 TCCAAAAATACCATTTT
1 TCCAAAAATACCATTTT
54112 TAACCTCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 8 0.13
28 35 0.58
29 17 0.28
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (28 bp):
TCCAAAAATACCATTTTACCCCATGATG
Found at i:66656 original size:209 final size:209
Alignment explanation
Indices: 66299--66761 Score: 653
Period size: 209 Copynumber: 2.2 Consensus size: 209
66289 AAACAACGAG
* * * *
66299 GCGGTCATCTTCTTGATGAGATACAGAGAAATATACCAACTCGAA-GAAACAAAGCTCAAATGTG
1 GCGGTCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATC-AATGAAACAAAGCTCAAATGTG
** * *
66363 AGCGAATATTCGAACCCCAGCTTCCTGATGAGGTACTGAGAGCAGGTCGAAGCAATAAAGCGGTT
65 AGAAAATATTCGAACCCCAGCTTCCTGATGAGATACTGAGAGCAGGTCAAAGCAATAAAGCGGTT
* * *
66428 ACCTTCTTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACACAAAGAAGTTA
130 ACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAAAGAAGTGA
66493 ATCAAAACAAGGGAT
195 ATCAAAACAAGGGAT
* *
66508 GCGGTCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCAATGAAGTC-AGGCTCAAA-GTG
1 GCGGTCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCAATGAA-ACAAAGCTCAAATGTG
* * *
66571 AGAAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGTAGGTCAAAGCAATAAAGCGGT
65 AGAAAATATTCGAACCCCAGCTTCCTGATGAGATACTGAG-AGCAGGTCAAAGCAATAAAGCGGT
* * *
66636 TACCTTCCTGATGGGATACAGAGAAGTGAACTAGATCCGTCTTCCTGATGAGACACAGAGAAGTG
129 TACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAAAGAAGTG
* * *
66701 GATCAAAATAAGTGAT
194 AATCAAAACAAGGGAT
* * *
66717 GCGATCATCTTCTTGATGAGATACTAAGAAGTAGACCAAATCAAT
1 GCGGTCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCAAT
66762 AACATCAAAC
Statistics
Matches: 226, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
208 40 0.18
209 185 0.82
210 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
GCGGTCATCTTCTTGATGAGATACTGAGAAGTAAACCAAATCAATGAAACAAAGCTCAAATGTGA
GAAAATATTCGAACCCCAGCTTCCTGATGAGATACTGAGAGCAGGTCAAAGCAATAAAGCGGTTA
CCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAAAGAAGTGAA
TCAAAACAAGGGAT
Found at i:67063 original size:6 final size:6
Alignment explanation
Indices: 67052--67133 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
67042 GGCCCAACAG
* * * *
67052 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
67097 -ATTGGA AATTTA AATTT- -ATTATA AATTTA AATTTA AA
1 AATT-TA AATTTA AATTTA AATT-TA AATTTA AATTTA AA
67134 CTTATATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
4 6 0.10
5 9 0.15
6 38 0.64
7 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:67077 original size:17 final size:17
Alignment explanation
Indices: 67052--67131 Score: 115
Period size: 17 Copynumber: 4.7 Consensus size: 17
67042 GGCCCAACAG
67052 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
*
67069 AAATTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* **
67086 AGTTTAAATTTATTGGA
1 AATTTAAATTTATTTTA
*
67103 AATTTAAATTTATTATA
1 AATTTAAATTTATTTTA
67120 AATTTAAATTTA
1 AATTTAAATTTA
67132 AACTTATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 55 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:67128 original size:23 final size:22
Alignment explanation
Indices: 67102--67144 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
67092 AATTTATTGG
*
67102 AAATTTAAATTTATTATAAATTT
1 AAATTTAAACTTA-TATAAATTT
67125 AAATTTAAACTTATATAAAT
1 AAATTTAAACTTATATAAAT
67145 AATGTCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTTAAACTTATATAAATTT
Found at i:67747 original size:3 final size:3
Alignment explanation
Indices: 67739--67802 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
67729 AACATGTATC
*
67739 TAA TAA TAA TAA TAA TAA TAA TAA -AA TATA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* *
67784 TAT TAA TAAA TAT TAA TAA
1 TAA TAA T-AA TAA TAA TAA
67803 AAAAGAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:67783 original size:27 final size:25
Alignment explanation
Indices: 67743--67802 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 25
67733 TGTATCTAAT
*
67743 AATAATAATAATAATAATA-AAATA
1 AATATTAATAATAATAATATAAATA
* *
67767 TATATTAATAATAATAATATTAATA
1 AATATTAATAATAATAATATAAATA
67792 AATATTAATAA
1 AATATTAATAA
67803 AAAAGAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AATATTAATAATAATAATATAAATA
Found at i:68892 original size:29 final size:29
Alignment explanation
Indices: 68822--69198 Score: 171
Period size: 29 Copynumber: 12.8 Consensus size: 29
68812 AAAGGTCCCT
* *
68822 AAACTGTCTAAAAATTACATTTTTAACCCC
1 AAACT-TCCAAAAATTACATTTTTAACCTC
* * *
68852 AAACTTTGCAAAAATCATATTTTTAACCTC
1 AAAC-TTCCAAAAATTACATTTTTAACCTC
*
68882 AAACTTCCAAAAATTACATTTTTGACC-C
1 AAACTTCCAAAAATTACATTTTTAACCTC
* * * * * *
68910 TAAACTTTTCAAAAATCATATTTTGACCCTT
1 -AAAC-TTCCAAAAATTACATTTTTAACCTC
**
68941 AAACTTCCAAAAATTACATTTTTCTCCTC
1 AAACTTCCAAAAATTACATTTTTAACCTC
* *
68970 AAACTTTCC-AAAATTGCATTTTTTACC-C
1 AAAC-TTCCAAAAATTACATTTTTAACCTC
* * * *
68998 GAATTTCTCAAAAAATTACATTTTCACCCTC
1 AAACTTC-C-AAAAATTACATTTTTAACCTC
* * * *
69029 AAACTTCAAAAAATTCCTTTTTTGACC-C
1 AAACTTCCAAAAATTACATTTTTAACCTC
* * * *
69057 TAAATTTTCTAAAAATTACCA-TTTTACCCTT
1 -AAA-CTTCCAAAAATTA-CATTTTTAACCTC
** * *
69088 GGA-TGTCCAAAAA-TATCATTTTTGACCTT
1 AAACT-TCCAAAAATTA-CATTTTTAACCTC
* * *
69117 GAACTTTTCAAAAATTACCA-TTTTACCCTC
1 AAAC-TTCCAAAAATTA-CATTTTTAACCTC
* * *
69147 GAA-TGTCCAAAAATTCCATTTTTGACCTC
1 AAACT-TCCAAAAATTACATTTTTAACCTC
**
69176 GAATTTTCC-AAAATTACCATTTT
1 -AAACTTCCAAAAATTA-CATTTT
69199 ACCCCCGGAT
Statistics
Matches: 258, Mismatches: 66, Indels: 46
0.70 0.18 0.12
Matches are distributed among these distances:
27 3 0.01
28 14 0.05
29 117 0.45
30 110 0.43
31 14 0.05
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTAACCTC
Found at i:68923 original size:59 final size:59
Alignment explanation
Indices: 68822--69042 Score: 231
Period size: 59 Copynumber: 3.7 Consensus size: 59
68812 AAAGGTCCCT
* *
68822 AAACTGTCTAAAAATTACATTTTTAACCC-CAAACTTTGCAAAAATCATATTTTTAACCTC
1 AAACT-TCCAAAAATTACATTTTT-ACCCTCAAACTTTCCAAAAATCATATTTTTAACCTC
* * * *
68882 AAACTTCCAAAAATTACATTTTTGACCCT-AAACTTTTCAAAAATCATATTTTGACCCTT
1 AAACTTCCAAAAATTACATTTTT-ACCCTCAAACTTTCCAAAAATCATATTTTTAACCTC
*
68941 AAACTTCCAAAAATTACATTTTT-CTCCTCAAACTTTCCAAAATTGCAT-TTTTT-ACC-C
1 AAACTTCCAAAAATTACATTTTTAC-CCTCAAACTTTCCAAAAAT-CATATTTTTAACCTC
* * * *
68998 GAATTTCTCAAAAAATTACATTTTCACCCTCAAAC-TTCAAAAAAT
1 AAACTTC-C-AAAAATTACATTTTTACCCTCAAACTTTCCAAAAAT
69043 TCCTTTTTTG
Statistics
Matches: 138, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
57 6 0.04
58 14 0.10
59 109 0.79
60 9 0.07
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (59 bp):
AAACTTCCAAAAATTACATTTTTACCCTCAAACTTTCCAAAAATCATATTTTTAACCTC
Found at i:68990 original size:88 final size:88
Alignment explanation
Indices: 68831--69043 Score: 218
Period size: 88 Copynumber: 2.4 Consensus size: 88
68821 TAAACTGTCT
* * * * *
68831 AAAAATTACATTTTTAACCC-CAAACTTTGCAAAAATCATATTTTTAACCTCAAACTTCCAAAAA
1 AAAAATCACA-TTTTCACCCTCAAAC-TTCCAAAAATTACATTTTTAACCTCAAACTTCCAAAAA
68895 TTACATTTTTGACCCTAAACTTT-TC-
64 TTACATTTTTGACCC-AAA-TTTCTCA
* * * **
68920 AAAAATCATATTTTGACCCTTAAACTTCCAAAAATTACATTTTTCTCCTCAAACTTTCC-AAAAT
1 AAAAATCACATTTTCACCCTCAAACTTCCAAAAATTACATTTTTAACCTCAAAC-TTCCAAAAAT
* * *
68984 TGCATTTTTTACCCGAATTTCTCA
65 TACATTTTTGACCCAAATTTCTCA
* *
69008 AAAAATTACATTTTCACCCTCAAACTTCAAAAAATT
1 AAAAATCACATTTTCACCCTCAAACTTCCAAAAATT
69044 CCTTTTTTGA
Statistics
Matches: 103, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
86 3 0.03
87 4 0.04
88 80 0.78
89 16 0.16
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.36
Consensus pattern (88 bp):
AAAAATCACATTTTCACCCTCAAACTTCCAAAAATTACATTTTTAACCTCAAACTTCCAAAAATT
ACATTTTTGACCCAAATTTCTCA
Found at i:69043 original size:59 final size:59
Alignment explanation
Indices: 68831--69202 Score: 210
Period size: 59 Copynumber: 6.3 Consensus size: 59
68821 TAAACTGTCT
* * * *
68831 AAAAATTACATTTTTAACCC-CAAACTTTGCAAAAA-TCATATTTTT-AACCTCAAA-CTTCC
1 AAAAATTACA-TTTTCACCCTCAAACTTT-CAAAAATTCAT-TTTTTGACCCT-AAATTTTCA
* * * *
68890 AAAAATTACATTTTTGACCCT-AAACTTTTCAAAAA-TCATATTTTGACCCTTAAA-CTTCC
1 AAAAATTACA-TTTTCACCCTCAAAC-TTTCAAAAATTCATTTTTTGACCC-TAAATTTTCA
* * *
68949 AAAAATTACATTTTTC-TCCTCAAACTTTCCAAAATTGCATTTTTT-ACCC-GAATTTCTCA
1 AAAAATTACA-TTTTCACCCTCAAACTTTCAAAAATT-CATTTTTTGACCCTAAATTT-TCA
* *
69008 AAAAATTACATTTTCACCCTCAAAC-TTCAAAAAATTCCTTTTTTGACCCTAAATTTTCT
1 AAAAATTACATTTTCACCCTCAAACTTTC-AAAAATTCATTTTTTGACCCTAAATTTTCA
*** * * *
69067 AAAAATTACCATTTT-ACCCTTGGA-TGTCCAAAAATATCA-TTTTTGACCTTGAACTTTTC-
1 AAAAATTA-CATTTTCACCCTCAAACT-TTCAAAAAT-TCATTTTTTGACCCT-AAATTTTCA
* * *
69126 AAAAATTACCATTTT-ACCCTCGAA-TGTCCAAAAATTCCA-TTTTTGA-CCTCGAATTTTC-
1 AAAAATTA-CATTTTCACCCTCAAACT-TTCAAAAATT-CATTTTTTGACCCT-AAATTTTCA
*
69184 CAAAATTACCATTTT-ACCC
1 AAAAATTA-CATTTTCACCC
69203 CCGGATATCC
Statistics
Matches: 265, Mismatches: 29, Indels: 39
0.80 0.09 0.12
Matches are distributed among these distances:
57 2 0.01
58 58 0.22
59 172 0.65
60 33 0.12
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAAATTACATTTTCACCCTCAAACTTTCAAAAATTCATTTTTTGACCCTAAATTTTCA
Found at i:69214 original size:58 final size:58
Alignment explanation
Indices: 68979--69236 Score: 274
Period size: 59 Copynumber: 4.4 Consensus size: 58
68969 CAAACTTTCC
* * ** *
68979 AAAATTGCATTTTTTACC-CGAATTTCTCAAAAAATTA-CATTTTCACCCTCAAACT-TCAA
1 AAAATTCCATTTTTGACCTCGAATTT-TC-AAAAATTACCATTTT-ACCCTCGGA-TGTCCA
* * *
69038 AAAATTCCTTTTTTGACC-CTAAATTTTCTAAAAATTACCATTTTACCCTTGGATGTCCA
1 AAAATTCCATTTTTGACCTC-GAATTTTC-AAAAATTACCATTTTACCCTCGGATGTCCA
* *
69097 AAAATAT-CATTTTTGACCTTGAACTTTTCAAAAATTACCATTTTACCCTCGAATGTCCA
1 AAAAT-TCCATTTTTGACCTCGAA-TTTTCAAAAATTACCATTTTACCCTCGGATGTCCA
* * *
69156 AAAATTCCATTTTTGACCTCGAATTTTCCAAAATTACCATTTTACCCCCGGATATCCA
1 AAAATTCCATTTTTGACCTCGAATTTTCAAAAATTACCATTTTACCCTCGGATGTCCA
* *
69214 AAAATACCATTTTTTACCTCGAA
1 AAAATTCCATTTTTGACCTCGAA
69237 CCTCCGAGAA
Statistics
Matches: 171, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
58 54 0.32
59 100 0.58
60 17 0.10
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.37
Consensus pattern (58 bp):
AAAATTCCATTTTTGACCTCGAATTTTCAAAAATTACCATTTTACCCTCGGATGTCCA
Found at i:69217 original size:29 final size:29
Alignment explanation
Indices: 69067--69312 Score: 159
Period size: 29 Copynumber: 8.5 Consensus size: 29
69057 TAAATTTTCT
* * *
69067 AAAAATTACCATTTTACCCTTGGATGTCC
1 AAAAATTACCATTTTACCCTCGAATATCC
* * * *
69096 AAAAA-TATCATTTTTGA-CCTTGAACTTTTC
1 AAAAATTACCA-TTTT-ACCCTCGAA-TATCC
*
69126 AAAAATTACCATTTTACCCTCGAATGTCC
1 AAAAATTACCATTTTACCCTCGAATATCC
*
69155 AAAAATT-CCATTTTTGA-CCTCGAATTTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAA-TATCC
* *
69185 -AAAATTACCATTTTACCCCCGGATATCC
1 AAAAATTACCATTTTACCCTCGAATATCC
**
69213 AAAAA-TACCATTTTTTA-CCTCGAACCTCC
1 AAAAATTACCA--TTTTACCCTCGAATATCC
* * * * * *
69242 GAGAATTACTATTTTGCCCCCGAAGTGTCC
1 AAAAATTACCATTTTACCCTCGAA-TATCC
**
69272 -AAAATTACCATTTTACCCTCGGGTATCC
1 AAAAATTACCATTTTACCCTCGAATATCC
69300 AAAAATTA-CATTT
1 AAAAATTACCATTT
69313 AATCTCGTTT
Statistics
Matches: 170, Mismatches: 30, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
28 30 0.18
29 97 0.57
30 39 0.23
31 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAATATCC
Found at i:69228 original size:59 final size:59
Alignment explanation
Indices: 68986--69285 Score: 258
Period size: 59 Copynumber: 5.1 Consensus size: 59
68976 TCCAAAATTG
* * * *
68986 CATTTTTT-ACC-CGAATTTCTCAAAAAATTA-CATTTTCACCCTCAAACT-TCAAAAAATTC
1 CATTTTTTGACCTCGAATTT-TC-AAAAATTACCATTTT-ACCCCCGAA-TGTCCAAAAATAC
* ** * *
69045 C-TTTTTTGACC-CTAAATTTTCTAAAAATTACCATTTTACCCTTGGATGTCCAAAAATAT
1 CATTTTTTGACCTC-GAATTTTC-AAAAATTACCATTTTACCCCCGAATGTCCAAAAATAC
* * *
69104 CA-TTTTTGACCTTGAACTTTTCAAAAATTACCATTTTACCCTCGAATGTCCAAAAATTC
1 CATTTTTTGACCTCGAA-TTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATAC
* * *
69163 CA-TTTTTGACCTCGAATTTTCCAAAATTACCATTTTACCCCCGGATATCCAAAAATAC
1 CATTTTTTGACCTCGAATTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATAC
** * * * * * *
69221 CATTTTTT-ACCTCGAACCTCCGAGAATTACTATTTTGCCCCCGAAGTGTCCAAAATTAC
1 CATTTTTTGACCTCGAATTTTCAAAAATTACCATTTTACCCCCGAA-TGTCCAAAAATAC
69280 CATTTT
1 CATTTT
69286 ACCCTCGGGT
Statistics
Matches: 202, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
58 75 0.37
59 111 0.55
60 16 0.08
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (59 bp):
CATTTTTTGACCTCGAATTTTCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATAC
Found at i:69234 original size:87 final size:86
Alignment explanation
Indices: 69125--69305 Score: 213
Period size: 87 Copynumber: 2.1 Consensus size: 86
69115 TTGAACTTTT
** * * * *
69125 CAAAAATTACCATTTTACCCTCGAATGTCCAAAAATT-CCATTTTTGACCTCGAATTTTCCAAAA
1 CAAAAA-TACCATTTTACCCTCGAACCTCCAAAAATTACTA-TTTTGACCCCGAAGTGTCCAAAA
69189 TTACCATTTTACCCCCGGATATC
64 TTACCATTTTACCCCCGGATATC
* * *
69212 CAAAAATACCATTTTTTA-CCTCGAACCTCCGAGAATTACTATTTTGCCCCCGAAGTGTCCAAAA
1 CAAAAATACCA--TTTTACCCTCGAACCTCCAAAAATTACTATTTTGACCCCGAAGTGTCCAAAA
* *
69276 TTACCATTTTACCCTCGGGTATC
64 TTACCATTTTACCCCCGGATATC
69299 CAAAAAT
1 CAAAAAT
69306 TACATTTAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
86 5 0.06
87 68 0.85
88 7 0.09
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (86 bp):
CAAAAATACCATTTTACCCTCGAACCTCCAAAAATTACTATTTTGACCCCGAAGTGTCCAAAATT
ACCATTTTACCCCCGGATATC
Found at i:69249 original size:58 final size:57
Alignment explanation
Indices: 69068--69285 Score: 238
Period size: 58 Copynumber: 3.7 Consensus size: 57
69058 AAATTTTCTA
** * * * *
69068 AAAATTACCATTTTACCCTTGGATGTCCAAAAATATCATTTTTGACCTTGAACTTTTCA
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATACCATTTTTGACCTCGAAC--TTCC
* * *
69127 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTTGACCTCGAATTTTCC
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATACCATTTTTGACCTCGAA-CTTCC
* * * *
69185 AAAATTACCATTTTACCCCCGGATATCCAAAAATACCATTTTTTACCTCGAACCTCC
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAATACCATTTTTGACCTCGAACTTCC
* * * *
69242 GAGAATTACTATTTTGCCCCCGAAGTGTCCAAAATTACCATTTT
1 -AAAATTACCATTTTACCCCCGAA-TGTCCAAAAATACCATTTT
69286 ACCCTCGGGT
Statistics
Matches: 136, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
57 3 0.02
58 69 0.51
59 64 0.47
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCGAATGTCCAAAAATACCATTTTTGACCTCGAACTTCC
Found at i:70539 original size:21 final size:21
Alignment explanation
Indices: 70513--70557 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
70503 TGGTGAGGTC
70513 TGGGTTCCTTTGCTTGTGCAA
1 TGGGTTCCTTTGCTTGTGCAA
70534 TGGGTTCCTTTGCTTGTGCAA
1 TGGGTTCCTTTGCTTGTGCAA
70555 TGG
1 TGG
70558 CTTCGTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.18, G:0.31, T:0.42
Consensus pattern (21 bp):
TGGGTTCCTTTGCTTGTGCAA
Found at i:73221 original size:12 final size:12
Alignment explanation
Indices: 73204--73233 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
73194 AGAAGAGCCT
73204 CGTGGCTACCGA
1 CGTGGCTACCGA
*
73216 CGTGGCTACTGA
1 CGTGGCTACCGA
73228 CGTGGC
1 CGTGGC
73234 CAAAAGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.30, G:0.37, T:0.20
Consensus pattern (12 bp):
CGTGGCTACCGA
Found at i:73838 original size:18 final size:17
Alignment explanation
Indices: 73811--73845 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
73801 ATGTATGTAC
*
73811 TTTTGCTTAGACTTATG
1 TTTTGCTTAGACCTATG
73828 TTTTGGCTTAGACCTATG
1 TTTT-GCTTAGACCTATG
73846 AGTCGCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.49
Consensus pattern (17 bp):
TTTTGCTTAGACCTATG
Found at i:76333 original size:18 final size:19
Alignment explanation
Indices: 76293--76333 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
76283 CTTTCCATTT
*
76293 CCCTTAGGCTTTGCCTTAG
1 CCCTTAGGCTTTACCTTAG
*
76312 -CCTTAGGC-TTACCTTTG
1 CCCTTAGGCTTTACCTTAG
76329 CCCTT
1 CCCTT
76334 GTTCTTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.10, C:0.34, G:0.17, T:0.39
Consensus pattern (19 bp):
CCCTTAGGCTTTACCTTAG
Found at i:84817 original size:38 final size:38
Alignment explanation
Indices: 84769--85058 Score: 282
Period size: 38 Copynumber: 7.6 Consensus size: 38
84759 AGAAAAATAT
* *
84769 TGATTATACTAAATGCTTTCTCAAGCGAGCGAATCTAT
1 TGATTATACTGAATGCTTTCTCAAGCGAGCGAATCTAC
* *
84807 TGATTATACTAAATGCTTGT-TCAAGCGAGTGAATCTAC
1 TGATTATACTGAATGCTT-TCTCAAGCGAGCGAATCTAC
* * **
84845 TGATTATACTGAATGATTGCTCAAGCGAGTAAATCTAC
1 TGATTATACTGAATGCTTTCTCAAGCGAGCGAATCTAC
* * * * *
84883 TGATTACACTGAATGCTTGCTCAAGAGAGCAAATATAC
1 TGATTATACTGAATGCTTTCTCAAGCGAGCGAATCTAC
* *
84921 TGATTACACTGAATGCTTGT-TCAAGCAAGCGAATCTAC
1 TGATTATACTGAATGCTT-TCTCAAGCGAGCGAATCTAC
* *
84959 TGATTATATTGAATGCTTGCTCAAGCGAGCGAATCTAC
1 TGATTATACTGAATGCTTTCTCAAGCGAGCGAATCTAC
* * ** * *
84997 TAATTTTACCAAATG-TTTGCTCAAGTGAGCGAATCCAC
1 TGATTATACTGAATGCTTT-CTCAAGCGAGCGAATCTAC
* * *
85035 TAATTTTATTGAATG-TTTGCTCAA
1 TGATTATACTGAATGCTTT-CTCAA
85059 ATGAGAAATA
Statistics
Matches: 216, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
37 2 0.01
38 213 0.99
39 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (38 bp):
TGATTATACTGAATGCTTTCTCAAGCGAGCGAATCTAC
Found at i:84872 original size:76 final size:76
Alignment explanation
Indices: 84769--85058 Score: 328
Period size: 76 Copynumber: 3.8 Consensus size: 76
84759 AGAAAAATAT
* * * *
84769 TGATTATACTAAATGCTTTCTCAAGCGAGCGAATCTATTGATTATACTAAATGCTTGTTCAAGCG
1 TGATTATACTAAATGCTTGCTCAAGCGAGCGAATCTACTGATTATACTGAATGCTTGCTCAAGCG
*
84834 AGTGAATCTAC
66 AGCGAATCTAC
* * ** * *
84845 TGATTATACTGAATGATTGCTCAAGCGAGTAAATCTACTGATTACACTGAATGCTTGCTCAAGAG
1 TGATTATACTAAATGCTTGCTCAAGCGAGCGAATCTACTGATTATACTGAATGCTTGCTCAAGCG
* *
84910 AGCAAATATAC
66 AGCGAATCTAC
* * * * *
84921 TGATTACACTGAATGCTTGTTCAAGCAAGCGAATCTACTGATTATATTGAATGCTTGCTCAAGCG
1 TGATTATACTAAATGCTTGCTCAAGCGAGCGAATCTACTGATTATACTGAATGCTTGCTCAAGCG
84986 AGCGAATCTAC
66 AGCGAATCTAC
* * * * * * * * * *
84997 TAATTTTACCAAATGTTTGCTCAAGTGAGCGAATCCACTAATTTTATTGAATGTTTGCTCAA
1 TGATTATACTAAATGCTTGCTCAAGCGAGCGAATCTACTGATTATACTGAATGCTTGCTCAA
85059 ATGAGAAATA
Statistics
Matches: 177, Mismatches: 37, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 177 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (76 bp):
TGATTATACTAAATGCTTGCTCAAGCGAGCGAATCTACTGATTATACTGAATGCTTGCTCAAGCG
AGCGAATCTAC
Found at i:84972 original size:114 final size:114
Alignment explanation
Indices: 84769--85026 Score: 327
Period size: 114 Copynumber: 2.3 Consensus size: 114
84759 AGAAAAATAT
* * * * * * * *
84769 TGATTATACTAAATGCTTTCTCAAGCGAGCGAATCTATTGATTATACTAAATGCTTGTTCAAGCG
1 TGATTACACTAAATGCTTGCTCAAGAGAGCAAATATACTGATTACACTAAATGCTTGTTCAAGCA
* *
84834 AGTGAATCTACTGATTATACTGAATGATTGCTCAAGCGAGTAAATCTAC
66 AGCGAATCTACTGATTATACTGAATGATTGCTCAAGCGAGCAAATCTAC
* *
84883 TGATTACACTGAATGCTTGCTCAAGAGAGCAAATATACTGATTACACTGAATGCTTGTTCAAGCA
1 TGATTACACTAAATGCTTGCTCAAGAGAGCAAATATACTGATTACACTAAATGCTTGTTCAAGCA
* * *
84948 AGCGAATCTACTGATTATATTGAATGCTTGCTCAAGCGAGCGAATCTAC
66 AGCGAATCTACTGATTATACTGAATGATTGCTCAAGCGAGCAAATCTAC
* ** * * *
84997 TAATTTTACCAAATGTTTGCTCAAGTGAGC
1 TGATTACACTAAATGCTTGCTCAAGAGAGC
85027 GAATCCACTA
Statistics
Matches: 122, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
114 122 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (114 bp):
TGATTACACTAAATGCTTGCTCAAGAGAGCAAATATACTGATTACACTAAATGCTTGTTCAAGCA
AGCGAATCTACTGATTATACTGAATGATTGCTCAAGCGAGCAAATCTAC
Found at i:85048 original size:114 final size:114
Alignment explanation
Indices: 84809--85104 Score: 290
Period size: 114 Copynumber: 2.6 Consensus size: 114
84799 GAATCTATTG
* * * * * *
84809 ATTATACTAAATGCTTGTTCAAGCGAGTGAATCTACTGATTATACTGAATGATTGCTCAAGCGAG
1 ATTACACTGAATGCTTGTTCAAGCAAGAGAATCTACTGATTATATTGAATGCTTGCTCAAGCGAG
* * ** * *
84874 TAAATCTACTGATTACACTGAATGCTTGCTCAAGAGAGCAAATATACTG
66 CAAATCTACTAATTACACCAAATGCTTGCTCAAGAGAGCAAATACACTA
*
84923 ATTACACTGAATGCTTGTTCAAGCAAGCGAATCTACTGATTATATTGAATGCTTGCTCAAGCGAG
1 ATTACACTGAATGCTTGTTCAAGCAAGAGAATCTACTGATTATATTGAATGCTTGCTCAAGCGAG
* ** * * * *
84988 CGAATCTACTAATTTTACCAAATGTTTGCTCAAGTGAGCGAATCCACTA
66 CAAATCTACTAATTACACCAAATGCTTGCTCAAGAGAGCAAATACACTA
** * * * * * * *
85037 ATTTTATTGAATGTTTGCTCAA--ATGAGAAATAACTATTGATTATATTGAATACTTGTTCAAGC
1 ATTACACTGAATGCTTGTTCAAGCAAGAG-AAT--CTACTGATTATATTGAATGCTTGCTCAAGC
85100 GAGCA
63 GAGCA
85105 TTATCCAATG
Statistics
Matches: 149, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
112 3 0.02
113 3 0.02
114 112 0.75
115 31 0.21
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (114 bp):
ATTACACTGAATGCTTGTTCAAGCAAGAGAATCTACTGATTATATTGAATGCTTGCTCAAGCGAG
CAAATCTACTAATTACACCAAATGCTTGCTCAAGAGAGCAAATACACTA
Found at i:86569 original size:24 final size:24
Alignment explanation
Indices: 86542--86598 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
86532 TGATATTCTA
86542 AGTTTTCCTTATAATTTAGATTTT
1 AGTTTTCCTTATAATTTAGATTTT
* ** *
86566 AGTTTT-CTTTTCTTTTAGGTTTT
1 AGTTTTCCTTATAATTTAGATTTT
*
86589 AGATTTCCTT
1 AGTTTTCCTT
86599 TTAGTTATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (24 bp):
AGTTTTCCTTATAATTTAGATTTT
Found at i:86588 original size:23 final size:24
Alignment explanation
Indices: 86556--86600 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
86546 TTCCTTATAA
*
86556 TTTAGATTTTAG-TTTTCTTTTCT
1 TTTAGATTTTAGATTTCCTTTTCT
*
86579 TTTAGGTTTTAGATTTCCTTTT
1 TTTAGATTTTAGATTTCCTTTT
86601 AGTTATGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (24 bp):
TTTAGATTTTAGATTTCCTTTTCT
Found at i:97713 original size:17 final size:17
Alignment explanation
Indices: 97688--97757 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
97678 ATGCATCTCA
* *
97688 TTTAATTGTCATTGCAT
1 TTTAGTTGTTATTGCAT
*
97705 TTTAGTTGTTGTTGCAT
1 TTTAGTTGTTATTGCAT
*
97722 TTTAGTTGTTAGTGCAT
1 TTTAGTTGTTATTGCAT
97739 TTATA-TTG-TAGTTGCAT
1 TT-TAGTTGTTA-TTGCAT
97756 TT
1 TT
97758 CCATTCTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
16 2 0.04
17 41 0.91
18 2 0.04
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (17 bp):
TTTAGTTGTTATTGCAT
Found at i:99225 original size:24 final size:24
Alignment explanation
Indices: 99193--99240 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99183 GAAAAAGATG
99193 GATATCAAGTGGTGAAGAATTAAA
1 GATATCAAGTGGTGAAGAATTAAA
99217 GATATCAAGTGGTGAAGAATTAAA
1 GATATCAAGTGGTGAAGAATTAAA
99241 CTCTGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.25, T:0.25
Consensus pattern (24 bp):
GATATCAAGTGGTGAAGAATTAAA
Found at i:105067 original size:21 final size:20
Alignment explanation
Indices: 105034--105072 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105024 TGAATAAAAT
*
105034 ATAAAAAGTATTTTAAATAA
1 ATAAAAAGTATTTAAAATAA
*
105054 ATAAAAATTAATTTAAAAT
1 ATAAAAAGT-ATTTAAAAT
105073 TATAGAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAAAAGTATTTAAAATAA
Found at i:105358 original size:32 final size:32
Alignment explanation
Indices: 105272--105361 Score: 128
Period size: 33 Copynumber: 2.8 Consensus size: 32
105262 TTGATATCTA
105272 AACTGTTTTTGACCTAATTTGGTACTTGAACTT
1 AACT-TTTTTGACCTAATTTGGTACTTGAACTT
105305 AACTTTTTTGGACCTAATTTGGTACTTGAACTT
1 AACTTTTTT-GACCTAATTTGGTACTTGAACTT
* *
105338 GACATTTTTT-CCCTAATTTGGTAC
1 AAC-TTTTTTGACCTAATTTGGTAC
105362 CTATTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
32 18 0.34
33 29 0.55
34 6 0.11
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (32 bp):
AACTTTTTTGACCTAATTTGGTACTTGAACTT
Found at i:105596 original size:59 final size:59
Alignment explanation
Indices: 105532--105644 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
105522 ATCAATATTA
* * *
105532 AAAAAATATTAGGTAGCAAATTAGAAAAAAATATCAAATTCAGATACCAAATTAGACCCC
1 AAAAAA-ATTAAGTACCAAATTAAAAAAAAATATCAAATTCAGATACCAAATTAGACCCC
* * * * *
105592 AAAAAAATTAAGTACCAACTTAAAAAAAAATGTCAAGTTTAGGTACCAAATTA
1 AAAAAAATTAAGTACCAAATTAAAAAAAAATATCAAATTCAGATACCAAATTA
105645 AGAAAAAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 39 0.87
60 6 0.13
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (59 bp):
AAAAAAATTAAGTACCAAATTAAAAAAAAATATCAAATTCAGATACCAAATTAGACCCC
Found at i:105643 original size:90 final size:92
Alignment explanation
Indices: 105540--105734 Score: 222
Period size: 90 Copynumber: 2.1 Consensus size: 92
105530 TAAAAAAATA
* * *
105540 TTAGGTAGCAAATT-AGAAAAAAATATCAAATTC-AGATACCAAATTAGACCCCAA-AAAAA-T-
1 TTAGGTACCAAATTAAG-AAAAAATATCAAATTCAAG-TACCAAATT-GAACCAAATAAAAAGTC
105600 TAAGTACCA-ACTTAAAAAAAAATGTCAAGT
63 TAAGTACCAGA-TTAAAAAAAAATGTCAAGT
* * * *
105630 TTAGGTACCAAATTAAGAAAAAGTGTCAAATTTAAGTACCAAATTGAACCAAATAAAAAGTCTAG
1 TTAGGTACCAAATTAAGAAAAAATATCAAATTCAAGTACCAAATTGAACCAAATAAAAAGTCTAA
* * *
105695 GTACCAGATTAGAAAAAAGTGTTAAGT
66 GTACCAGATTAAAAAAAAATGTCAAGT
105722 TTAGGTACCAAAT
1 TTAGGTACCAAAT
105735 GTTATATTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
89 6 0.07
90 40 0.45
91 5 0.06
92 37 0.42
93 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (92 bp):
TTAGGTACCAAATTAAGAAAAAATATCAAATTCAAGTACCAAATTGAACCAAATAAAAAGTCTAA
GTACCAGATTAAAAAAAAATGTCAAGT
Found at i:105651 original size:31 final size:30
Alignment explanation
Indices: 105616--105734 Score: 114
Period size: 31 Copynumber: 3.9 Consensus size: 30
105606 CCAACTTAAA
105616 AAAAAATGTCAAGTTTAGGTACCAAATTAAG
1 AAAAAATGTCAAGTTTAGGTACCAAATT-AG
* * *
105647 AAAAAGTGTCAAATTTAAGTACCAAATT-G
1 AAAAAATGTCAAGTTTAGGTACCAAATTAG
* *** * *
105676 AACCAAATAAAAAGTCTAGGTACCAGATTAG
1 AA-AAAATGTCAAGTTTAGGTACCAAATTAG
*
105707 AAAAAAGTGTTAAGTTTAGGTACCAAAT
1 AAAAAA-TGTCAAGTTTAGGTACCAAAT
105735 GTTATATTAA
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
29 3 0.04
30 20 0.30
31 44 0.66
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (30 bp):
AAAAAATGTCAAGTTTAGGTACCAAATTAG
Found at i:106721 original size:18 final size:18
Alignment explanation
Indices: 106695--106729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106685 AAGATCCGAG
* *
106695 GATGGCGAAGATGATGAC
1 GATGACGAAGAGGATGAC
106713 GATGACGAAGAGGATGA
1 GATGACGAAGAGGATGA
106730 GGACGAGGGC
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:0.37, C:0.09, G:0.40, T:0.14
Consensus pattern (18 bp):
GATGACGAAGAGGATGAC
Found at i:109619 original size:146 final size:145
Alignment explanation
Indices: 109337--109801 Score: 520
Period size: 146 Copynumber: 3.2 Consensus size: 145
109327 TTCCGTAATA
109337 GACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAACAAAA-CATAAGACA
1 GACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAA-AAAATCATAAGACA
** * * * * *
109401 CAAGAACTTCCCCATGAATCACATGATAAATTTCCCTTTTAACC-AGTTAAAAAATTATACTTCA
65 CAAGAACTTTACTATGCATCACATGATAAATTTCCATTTTAACCTA-TTAAAAATTTATACTTTA
* **
109465 TCATTGATTCTTTCATAC-
129 TCTTTGATTCAAT-A-ACG
* **
109483 G-CTTTGCCTCAAAATTAAAGTTTCAATATTTAAAAATGAAATTGAAAATAAAAATCATAAGACA
1 GACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAA-AAAAATCATAAGACA
* * * * * * *
109547 TAATAACTTTACTATGCATCACATGGTAAATTTCCATTTTTACTTCTTAAAAATTTATAATTTAT
65 CAAGAACTTTACTATGCATCACATGATAAATTTCCATTTTAACCTATTAAAAATTTATACTTTAT
109612 CTTTGATTCAATAACG
130 CTTTGATTCAATAACG
* * *
109628 GACTTCGCCTCAAAATTCGACTTACTATATTTAAAAATG-AATCTG---AAAAAATCATAAGACA
1 GACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAAT-TGAAAAAAAAATCATAAGACA
* *
109689 CAAGAAC-TTAGCTATGCATCACATGATAAATTTTCATTTTAACCTAATAAAAATTTATACTTTA
65 CAAGAACTTTA-CTATGCATCACATGATAAATTTCCATTTTAACCTATTAAAAATTTATACTTTA
* * *
109753 TCTATGATTTC-TTAATG
129 TCTTTGA-TTCAATAACG
*
109770 GACTTCACCTCAAAATTCGAGTTTCAAT-TTTA
1 GACTTCGCCTCAAAATTCGAGTTTCAATATTTA
109802 TCTTGTATTC
Statistics
Matches: 269, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
141 7 0.03
142 100 0.37
143 4 0.01
144 2 0.01
145 53 0.20
146 103 0.38
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (145 bp):
GACTTCGCCTCAAAATTCGAGTTTCAATATTTAAAAATGAAATTGAAAAAAAAATCATAAGACAC
AAGAACTTTACTATGCATCACATGATAAATTTCCATTTTAACCTATTAAAAATTTATACTTTATC
TTTGATTCAATAACG
Found at i:110776 original size:483 final size:484
Alignment explanation
Indices: 109798--111059 Score: 1383
Period size: 482 Copynumber: 2.6 Consensus size: 484
109788 GAGTTTCAAT
* * * * * *
109798 TTTATC-TTGTATTCCGTAATGGATTTTACCTTAAAATTCGAGTTTTAATATTTAAAAATGAAAC
1 TTTATCTTTG-ATTCCGTAAT-GAATTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGGAAT
* * * **
109862 TGAAAAAATCATAACACAAAAGAACTTCACTATGGATCACATGGTAAATTTCCATTTTAACCTCG
64 TGAAAAAATCATAAGACACAAGAACTTCACTATGAATCACATGGTAAATTTCCATTTTAACCTAT
* * * * *
109927 TAAAAATTTATACTTTTTCATTCATTCATTCCGTAAAAGACTT-CAGCTC-AAGATCGAGTTTTA
129 TAAAAATTTATAC-ATTT-A-TCTTTCATTCCGTAAAAGATTTGC--CTCAAAAATTGAGTTTTA
** * * * *
109990 ATATTTAAAAATAAAAATAAAAAGAAATCATAAAAACACGTGGACTTCGTTATATATCACATGAA
189 ATAACTAAAAAT-AAAATAAAAAGAACTAATTAAAACACGTGAACTTCGTTATATATCACATGAA
* * * ** * * *
110055 TCTGTTAAAAACGCA-AGCAACCCTAAATATCCTTGTGGTTGGTGAAAAGATTGTAAATCCAACA
253 TCTATTAAAAAAGTAGA-CAACCCTAAATATCCAAGTGGGTAGTGAAAAGATTGGAAATCCAACA
* *
110119 TTTGTCAAACCCCTAATTGCAATCATCAAACTTCATTACTGTAGTACTAATTTTTGTTTTCATGA
317 TTTGTCAAACCCCTAATTGCAATCATCAAACTACATTACTGTAGTACTAATTTTTGATTTCATGA
* * * * *
110184 TAATTACCAAATTGGGCAAACTTTAATTCTACATGTGTTGGTCTTCAAGAAAACCTCAACATATT
382 TAATTACCAAATTGGGCAAACATTAATTCTACAAGGGTAGGTCTTCAACAAAACCTCAACATATT
* *
110249 GGAAATTTGAATTGTCCACAGCACTTACATAATACCTA
447 GGAAAATTGAATTGTCCACAACACTTACATAATACCTA
* * * *
110287 TTTATCTTTGATTCCATAATGAATTTCGCCTCAAAATCCGAGATTCAATATTTAAAAATGGTATT
1 TTTATCTTTGATTCCGTAATGAATTT-GCCTCAAAATTCGAGTTTCAATATTTAAAAATGGAATT
* *
110352 GTAAAAAATCATAAGACACAAGAACTT-ACCTATAAATCACATGGTAAATTTCTATTTTAACCTA
65 G-AAAAAATCATAAGACACAAGAACTTCA-CTATGAATCACATGGTAAATTTCCATTTTAACCTA
* *
110416 TTAAAAATTCATA-ATTTATCTTTCATTCCGTAATAGATTTGGCCTCAAAAATTGAGTTTTAATA
128 TTAAAAATTTATACATTTATCTTTCATTCCGTAAAAGATTT-GCCTCAAAAATTGAGTTTTAATA
** * * *
110480 AGAAAAAATAAAATAAAAA-AACTGATTAAAACACATGAACTTCGTTATAAATCACATGAATCTA
192 ACTAAAAATAAAATAAAAAGAACTAATTAAAACACGTGAACTTCGTTATATATCACATGAATCTA
* *
110544 TTAAAAAAAGTAGACAACTCTAAATATCCAAGTGGGTAGTGAAAAGA-TGGAAATCCACCATTTG
257 TT-AAAAAAGTAGACAACCCTAAATATCCAAGTGGGTAGTGAAAAGATTGGAAATCCAACATTTG
* *
110608 TC-AACCCCATAATTGC-ATTATTCAAAC-ACATTACTGTAGTATTAA-TTTTGATTTCATGATA
321 TCAAACCCC-TAATTGCAATCA-TCAAACTACATTACTGTAGTACTAATTTTTGATTTCATGATA
* * * **
110669 ATTACCAAATTGGGCAAACATTAGTTTTATAAGGGTAGGTCTTTTACAAAACCTCAACATATT-G
384 ATTACCAAATTGGGCAAACATTAATTCTACAAGGGTAGGTCTTCAACAAAACCTCAACATATTGG
** * * *
110733 ACAAATTGGGTTGTCCTCAACACTTACGTAATAGCTA
449 A-AAATTGAATTGTCCACAACACTTACATAATACCTA
* ** * * *
110770 TTTATCTTTGGTTTTGTAACTGACTTTGCCTC-AATTTTGAGTTTCAATATTTAAAAAT-GAATT
1 TTTATCTTTGATTCCGTAA-TGAATTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGGAA-T
* ** * * *
110833 TGAAAAAAAACATAAGACACAAGAACGCCACTATGAATCACATGATAAATTTCCATTTTAACTTT
64 TG-AAAAAATCATAAGACACAAGAACTTCACTATGAATCACATGGTAAATTTCCATTTTAACCTA
* ** *
110898 TTAAAAATTTATACA-TTATCTTTCATTCTGTAACAA-ACATGCCTAAAAAATTGAG-TTTAATA
128 TTAAAAATTTATACATTTATCTTTCATTCCGTAA-AAGATTTGCCTCAAAAATTGAGTTTTAATA
* * * * *
110960 ACTAGAAATAAAATTAAAAAGAACTAATTAAAACACGTGAATTTCGTTATGTATCACATGATTAT
192 ACTAAAAATAAAA-TAAAAAGAACTAATTAAAACACGTGAACTTCGTTATATATCACATGAATCT
* * *
111025 GTTAAAAAA-TAGACAACGCTAAATACCCAAGTGGG
256 ATTAAAAAAGTAGACAACCCTAAATATCCAAGTGGG
111060 AGTTGAATGG
Statistics
Matches: 652, Mismatches: 102, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
480 41 0.06
481 28 0.04
482 149 0.23
483 119 0.18
484 31 0.05
485 70 0.11
486 67 0.10
487 23 0.04
488 9 0.01
489 47 0.07
490 68 0.10
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (484 bp):
TTTATCTTTGATTCCGTAATGAATTTGCCTCAAAATTCGAGTTTCAATATTTAAAAATGGAATTG
AAAAAATCATAAGACACAAGAACTTCACTATGAATCACATGGTAAATTTCCATTTTAACCTATTA
AAAATTTATACATTTATCTTTCATTCCGTAAAAGATTTGCCTCAAAAATTGAGTTTTAATAACTA
AAAATAAAATAAAAAGAACTAATTAAAACACGTGAACTTCGTTATATATCACATGAATCTATTAA
AAAAGTAGACAACCCTAAATATCCAAGTGGGTAGTGAAAAGATTGGAAATCCAACATTTGTCAAA
CCCCTAATTGCAATCATCAAACTACATTACTGTAGTACTAATTTTTGATTTCATGATAATTACCA
AATTGGGCAAACATTAATTCTACAAGGGTAGGTCTTCAACAAAACCTCAACATATTGGAAAATTG
AATTGTCCACAACACTTACATAATACCTA
Found at i:112575 original size:703 final size:697
Alignment explanation
Indices: 111239--112576 Score: 1802
Period size: 703 Copynumber: 1.9 Consensus size: 697
111229 TTTGACATAT
*
111239 TAAAAATAATAAAATTACTTTACTACCGCTCAAAAATATAAAAAATAATAAACTAATATGACTTT
1 TAAAAATAATAAAATTACTTTACTACCGCTCAAAAATATAAAAAATAATAAAATAATATGACTTT
* * *
111304 TTAAAAGAATTATATTTTATCTTGTATTCCGTAATAGACTTTTCCATAAATTTGTATTTCAAAAT
66 TTAAAAAAATTATATTTTATCTTGTATTCCGCAATAGACTTTTCCATAAATTCGTATTTCAAAAT
* * * *
111369 TTAAAATGATACTGAAAAAATCATAAGACATAAGAATTTCATTATGCATCAGATGGTAAATTTCC
131 TTAAAATGAAACTGAAAAAATCATAAGACATAAGAACTTCACTATGCATCACATGGTAAATTTCC
* * * * ** * *
111434 ATTTTAACCTCTTAAAAATTCATACTTTATCTTTCATTCTCTAATATATTTTGCCTCAAAATTTG
196 ATTTTAACCTCTTAAAAATTCATACTTTATCATTCATTCTCTAACAAACTTCACCTCAAAATATC
* *
111499 AATTTTAATATTTAAAATAAATTAAAAAGAAATCATAAAAATACGTGAACATCGTTATGTATCAC
261 AATTTTAATATTTAAAATAAAATAAAAAGAAATCATAAAAACACGTGAACATCGTTATGTATCAC
** * * *
111564 ATGAATATGTTAAAAAAAGTAGACAACTTTAAATATCCAAGTGGATGGTGAAAAGATTGTAAATC
326 ATGAATATACTAAAAAAAGCAGACAACCTTAAATATCCAAGTGGATGGTAAAAAGATTGTAAATC
* * *
111629 CAACATTTGTCAAACCCCAAATTGCATTCATCAAAGTTAATTAGTGTAGTACTAATTTTGTTTTC
391 CAACATATGTCAAACCCCAAATTGCATTCATCAAAGTTAATTACTGTAGCACTAATTTTGTTTTC
* *
111694 ATGATAATTACCAAATTAGGCAAAGTTTAGTTCTACAAGTGTTGGTCTTCAACAAAACCTCAACA
456 ATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTGGTCTTCAACAAAACCTCAACA
** * * * * *
111759 TATTAAAATTTTAGGTTGTCCACAACGCTTGCATAATAGCTATTTATTTTTTATTTCGAACAGAT
521 TATTAAAATTTTAGGTTGTCCACAAAACTTACATAATAGCTATTTATCTTTGATTCCGAACAGAC
** * *
111824 TTCACCTCAAAATTCGAGTTTCATTATTTAAAAATGAAATTGAAAAAAAAAAGACACAAGAACAT
586 TTCACCTCAAAATTAAAGTTTCAATATTTAAAAATAAAATTGAAAAAAAAAAGACACAAGAACAT
111889 CGCTATAAATCACATTATTTAAGCGGCAGACGGTGGCTTTGGCCTAC
651 CGCTATAAATCACATTATTTAAGCGGCAGACGGTGGCTTTGGCCTAC
* * * *
111936 TAAAAATAATAATATTACTTTA-TAACCGTTC-AAAAT-TTAAAAATAATAAAATAATGTGAC-T
1 TAAAAATAATAAAATTACTTTACT-ACCGCTCAAAAATATAAAAAATAATAAAATAATATGACTT
**
111997 TTTAAAAAAATTATATTTTATCTTGTATTTTGCAATAGA-TTTTACC-TCAAAATTCG-AGTTTC
65 TTTAAAAAAATTATATTTTATCTTGTATTCCGCAATAGACTTTT-CCAT--AAATTCGTA-TTTC
* * * *
112059 AATATTTAAAAATGAAATTGAAAAAAATCATACGACATAAGAACTTCACTATGGATCACATGGTA
126 AAAATTT-AAAATGAAACTG-AAAAAATCATAAGACATAAGAACTTCACTATGCATCACATGGTA
*
112124 AATTTCCATTTTAACCTCTTAAAAATTTATACTTTTTCATCCATTCATTC-CATAACAAACTTCA
189 AATTTCCATTTTAACCTCTTAAAAATTCATAC--TTT-AT-CATTCATTCTC-TAACAAACTTCA
112188 CCTCAAAA-ATCAAGTTTTAATATTTAAAAATAAAAATAAAAAGAAATCATAAAAACACGTGAAC
249 CCTCAAAATATCAA-TTTTAATATTT-AAAAT-AAAATAAAAAGAAATCATAAAAACACGTGAAC
* * * * *
112252 TTCGTTATGTATCACATGAATCTACT-AAAAACGCAGGCAACCTTAAATATCCAAGTGGTTGGTA
311 ATCGTTATGTATCACATGAATATACTAAAAAAAGCAGACAACCTTAAATATCCAAGTGGATGGTA
* *
112316 AAAAGATTGTAAATCCAACATATGTCAAACCCCCTAATTGCATTCATCGAAA-TTCATTACTGTA
376 AAAAGATTGTAAATCCAACATATGTCAAA-CCCCAAATTGCATTCATC-AAAGTTAATTACTGTA
*
112380 GCACTAATTTTGTTTTCATGATAATTACCAAATTGGGCAAACTTTAGTTCTACAAGGGTTGGTCT
439 GCACTAATTTTGTTTTCATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTGGTCT
** ** * * *
112445 TTTACAAAACCTCAACATATTGGCAA-TTTGGGTTGTCCTCAAAACTTACATAATAGTTATTTAT
504 TCAACAAAACCTCAACATATT-AAAATTTTAGGTTGTCCACAAAACTTACATAATAGCTATTTAT
* * *
112509 CTTTGATTCCATAATAGACTTCGCCTCAAAATTAAAGTTTCAATATTTAAAAATAAAATT-AAAA
568 CTTTGATTCC-GAACAGACTTCACCTCAAAATTAAAGTTTCAATATTTAAAAATAAAATTGAAAA
112573 AAAA
632 AAAA
112577 TCATAAAACA
Statistics
Matches: 554, Mismatches: 68, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
693 5 0.01
694 39 0.07
695 37 0.07
696 16 0.03
697 97 0.18
699 3 0.01
700 6 0.01
701 34 0.06
702 65 0.12
703 206 0.37
704 46 0.08
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (697 bp):
TAAAAATAATAAAATTACTTTACTACCGCTCAAAAATATAAAAAATAATAAAATAATATGACTTT
TTAAAAAAATTATATTTTATCTTGTATTCCGCAATAGACTTTTCCATAAATTCGTATTTCAAAAT
TTAAAATGAAACTGAAAAAATCATAAGACATAAGAACTTCACTATGCATCACATGGTAAATTTCC
ATTTTAACCTCTTAAAAATTCATACTTTATCATTCATTCTCTAACAAACTTCACCTCAAAATATC
AATTTTAATATTTAAAATAAAATAAAAAGAAATCATAAAAACACGTGAACATCGTTATGTATCAC
ATGAATATACTAAAAAAAGCAGACAACCTTAAATATCCAAGTGGATGGTAAAAAGATTGTAAATC
CAACATATGTCAAACCCCAAATTGCATTCATCAAAGTTAATTACTGTAGCACTAATTTTGTTTTC
ATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAAGGGTTGGTCTTCAACAAAACCTCAACA
TATTAAAATTTTAGGTTGTCCACAAAACTTACATAATAGCTATTTATCTTTGATTCCGAACAGAC
TTCACCTCAAAATTAAAGTTTCAATATTTAAAAATAAAATTGAAAAAAAAAAGACACAAGAACAT
CGCTATAAATCACATTATTTAAGCGGCAGACGGTGGCTTTGGCCTAC
Found at i:112916 original size:24 final size:24
Alignment explanation
Indices: 112883--112945 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
112873 AAAATTAATA
*
112883 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTAATTG
* *
112907 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAATTG
112931 TTT-AAGTTAAACTCT
1 TTTCAA-TTAAACTCT
112946 TATTAGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAATTG
Found at i:114925 original size:24 final size:24
Alignment explanation
Indices: 114864--114928 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
114854 AATCTTTAAG
*
114864 TTAAACTCTGTTTAATTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
* * *
114888 TTACACTATATTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
114912 TTAAACTCTGTTTATTT
1 TTAAACTCTGTTTATTT
114929 ATTTAAGTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.54
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:116526 original size:486 final size:482
Alignment explanation
Indices: 115457--116706 Score: 1344
Period size: 485 Copynumber: 2.6 Consensus size: 482
115447 TTTATATTGT
* * * ** *
115457 ATTCTGTAACGGATTTTACCTTAAAATTCGAGTTTCAATATTTAAAAATGAAACTG-AAAAAATA
1 ATTCCGTAACGGATTTCACC-TCAAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAAAA
* * * * * * ** *
115521 TAACACAAAAGAACTTCACTATGGATCCCATGAAAAATTTCCATTTTAACCTCTTAAAAAATTTA
65 TAAGACACAAGAACATCGCTATGAATCACATGGTAAATTTTCATTTTAACCTCTT-AAAAATTTA
* * * * ** **
115586 TACTTTTTCATTCATTCATTCTGTAACAGACTTTGGCTCAAAAATCAAGTTTTAATATTTAAAAA
129 TA--ATTT-A-TCTTTCATTCCGTAACA-AATTTGGCTCAAAAATTGAGTTTTAATAAATAAAAA
* * * *
115651 TAAAA--AGAAATC-A--TA--AAAACATGTGGACTTCGTTATATATCACATGAATCTGTTAAAA
189 TAAAATTA-AAAACAACTTATTAAAACACGTGAACTTCGCTATATATCACATGAATCTGTTAAAA
* ** * * * * * *
115709 ACACAGGTAACCTTAAATATCCAAGTAGTTGGTGAAAAGATTGTAAATCCAACATTTGTCAAACC
253 A-ATAGACAACCCTAAATATCCAAGTGGATAGTGAAAAGATTGAAAATCCAACATTTGCCAAACC
* * * *
115774 CCTAATTGCATTCATCAAACTTCATTACTGTAGTACTAATTTTTGTTTCCATGATAATTACCAAA
317 CCGAATTGCATTCATCAAACTACATTACTGCAGTACTAATTTTTGTTTCCATGAAAATTACCAAA
* * *
115839 TTAGGCAAACTTTAGTTCTATAGGTGTTGGTCTTCAAGAAAACCTCAACATATTGGAAGATTGGG
382 TTAGGCAAACATTAGTTCTATAGGTGTAGGTCTTCAAGAAAACCTCAACATATTGGAAAATTGGG
*
115904 TTGTCCACAGCACTTACATAATACCTATTTACTTTG
447 TTGTCCACAACACTTACATAATACCTATTTACTTTG
* * * * * ** * *
115940 ATTCCATAACGAAATTCGCCTCAAAATCTGAAATTCAGTATTTAAAAATG-ATGTTGTAAAAAAT
1 ATTCCGTAACGGATTTCACCTCAAATTC-GAGTTTCAATATTTAAAAATGAAT-TTG-AAAAAAA
* * *
116004 CATAAGACACAAGAACATAGCTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTC
63 AATAAGACACAAGAACATCGCTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTT
* *
116069 ATAATTTATCTTTCATTCCGTAACATATTTGGCGTCAAAAATTGAGTTTTAATAAGAAAAAAATA
128 ATAATTTATCTTTCATTCCGTAACAAATTTGGC-TCAAAAATTGAGTTTTAATAA-ATAAAAATA
* *
116134 AAATTAAAAACAACTTATTAAAACACGTGAACTTCGCTATAAATTACATGAATCTGTTAAAAAAG
191 AAATTAAAAACAACTTATTAAAACACGTGAACTTCGCTATATATCACATGAATCTGTTAAAAAA-
* * *
116199 TAGACAACCCCAAATATCCAAGTGGATAGTGAAAAGATTGAAAAT-CAACCGTTTGCCAACCCCC
255 TAGACAACCCTAAATATCCAAGTGGATAGTGAAAAGATTGAAAATCCAA-CATTTGCCAAACCCC
* *
116263 GAATTGCATTCATCAAAC-ACATTACTGCAGTATTAA-TTTTGATTT-CATGAAAATTATCAAAT
319 GAATTGCATTCATCAAACTACATTACTGCAGTACTAATTTTTG-TTTCCATGAAAATTACCAAAT
* * ** *
116325 TGGGCAAACATTAGTTTTATAAGG-GTAGGTCTTTTAGAAAACCTCAACGTATT-GACAAATTGG
383 TAGGCAAACATTAGTTCTAT-AGGTGTAGGTCTTCAAGAAAACCTCAACATATTGGA-AAATTGG
* * * *
116388 GTTGTCCTCAATATTTACATAATAGCTATTTATCTTTG
446 GTTGTCCACAACACTTACATAATACCTATTTA-CTTTG
*
116426 ATTCCGTAACGGATTTCACCTCGCAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAAAA
1 ATTCCGTAACGGATTTCACCTC-AAATTCGAGTTTCAATATTTAAAAATGAATTTG-AAAAAAAA
** * *
116491 ATAAGACACAAGAACGCCGCAATGAATCACATGGTAAA-TTTCTTTTTTAACCTCTTAAAAATTT
64 ATAAGACACAAGAACATCGCTATGAATCACATGGTAAATTTTC-ATTTTAACCTCTTAAAAATTT
* * * * * * * *
116555 ACACTTTATCTTTCAATCCGTAATAAACTTGTCTAAAAAATTGAGTTTTAATAACTAAAAATAAA
128 ATAATTTATCTTTCATTCCGTAACAAATTTGGCTCAAAAATTGAGTTTTAATAAATAAAAATAAA
* * * * * *
116620 ATTAAAAAGAACTGATTAAAACACGTGAACTTCACTATGTATCACATGATTATGTTAAAAAATAG
193 ATTAAAAACAACTTATTAAAACACGTGAACTTCGCTATATATCACATGAATCTGTTAAAAAATAG
116685 ACAACCCTAAATATCCAAGTGG
258 ACAACCCTAAATATCCAAGTGG
116707 GTGTTGAATG
Statistics
Matches: 635, Mismatches: 110, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
479 6 0.01
480 33 0.05
481 11 0.02
482 14 0.02
483 60 0.09
484 75 0.12
485 172 0.27
486 154 0.24
487 110 0.17
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (482 bp):
ATTCCGTAACGGATTTCACCTCAAATTCGAGTTTCAATATTTAAAAATGAATTTGAAAAAAAAAT
AAGACACAAGAACATCGCTATGAATCACATGGTAAATTTTCATTTTAACCTCTTAAAAATTTATA
ATTTATCTTTCATTCCGTAACAAATTTGGCTCAAAAATTGAGTTTTAATAAATAAAAATAAAATT
AAAAACAACTTATTAAAACACGTGAACTTCGCTATATATCACATGAATCTGTTAAAAAATAGACA
ACCCTAAATATCCAAGTGGATAGTGAAAAGATTGAAAATCCAACATTTGCCAAACCCCGAATTGC
ATTCATCAAACTACATTACTGCAGTACTAATTTTTGTTTCCATGAAAATTACCAAATTAGGCAAA
CATTAGTTCTATAGGTGTAGGTCTTCAAGAAAACCTCAACATATTGGAAAATTGGGTTGTCCACA
ACACTTACATAATACCTATTTACTTTG
Found at i:118505 original size:145 final size:142
Alignment explanation
Indices: 118252--118656 Score: 372
Period size: 145 Copynumber: 2.8 Consensus size: 142
118242 ATTTCGCCTC
* * * * *
118252 AAAATTCGAGTTTCATTATTTAAAAATGAAATTGAAAAAAATCATAAGACATAAGAACTTCCCCA
1 AAAATTCAAGTTTCAATATTTAAAAATAAAATTGAAAAAAACCATAAGACATAAGAACTTCACCA
* *
118317 TGAATTACATGATAAATTTCCTTTTTAACCACTTAAAAGTTTATACTTTATCATTGATTCTTTCA
66 TGAATCACATGATAAATTTCCTTTTTAACCACTTAAAAATTTATACTTTATCATTGATTCTTTCA
118382 TACACTTTCCTT
131 TACACTTTCCTT
* * *
118394 AAAATTCAAGTTTCAATATTTAAAAATAAAATTGAAAATAAAAACCGTAAGACATAATAATTTCA
1 AAAATTCAAGTTTCAATATTTAAAAATAAAATTG--AA-AAAAACCATAAGACATAAGAACTTCA
* * * * ** *
118459 CTATGCATCACATGGTGAATTTCCATTTTT-ACTTCTTAAAAATTTATACTTTATCTTTGATTCT
63 CCATGAATCACATGATAAATTTCC-TTTTTAACCACTTAAAAATTTATACTTTATCATTGATTCT
* *
118523 AT-A-ACGGA-TTTCGCCTC
127 TTCATAC--ACTTT--CCTT
* * * * * * * *
118540 AAAATTCGAGTTACTATATTTAAAAAT-GAATCTGAAAAAAATCACATGACACAAGAACTT-AGC
1 AAAATTCAAGTTTCAATATTTAAAAATAAAAT-TGAAAAAAACCATAAGACATAAGAACTTCA-C
* * * * * * *
118603 TATGCATAACATGATAAATTTTCATTTTAACCTCTTAAAAATTTAAACTTTATC
64 CATGAATCACATGATAAATTTCCTTTTTAACCACTTAAAAATTTATACTTTATC
118657 TTCAATTTCC
Statistics
Matches: 215, Mismatches: 37, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
142 36 0.17
143 62 0.29
144 8 0.04
145 75 0.35
146 34 0.16
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (142 bp):
AAAATTCAAGTTTCAATATTTAAAAATAAAATTGAAAAAAACCATAAGACATAAGAACTTCACCA
TGAATCACATGATAAATTTCCTTTTTAACCACTTAAAAATTTATACTTTATCATTGATTCTTTCA
TACACTTTCCTT
Found at i:118639 original size:143 final size:139
Alignment explanation
Indices: 118220--118658 Score: 427
Period size: 143 Copynumber: 3.1 Consensus size: 139
118210 ATAATAGTTA
** *
118220 TTTATCTTTGATTCCGTAATAGATTTCGCCTCAAAATTCGAGTTTCATTATTTAAAAATGAAATT
1 TTTATCTTTGATTCTATAA-CGATTTCGCCTCAAAATTCGAGTTTCA-TATTTAAAAATG-AATT
* * * * * * *
118285 GAAAAAAATCATAAGACATAAGAACTTCCCCATGAATTACATGATAAATTTCCTTTTTAACCACT
63 GAAAAAAATCACAAGACATAAGAACTT-ACTATGCATAACATGATAAATTTCCATTTTAACCTCT
*
118350 TAAAAGTTTATAC
127 TAAAAATTTATAC
* * * * *
118363 TTTATCATTGATTCTTTCATAC-ACTTT--CCTTAAAATTCAAGTTTCAATATTTAAAAATAAAA
1 TTTATCTTTGATTCTAT-A-ACGA-TTTCGCCTCAAAATTCGAGTTTC-ATATTTAAAAAT-GAA
* * * * * * *
118425 TTGAAAATAAA-AACCGTAAGACATAATAATTTCACTATGCATCACATGGTGAATTTCCATTTTT
61 TTGAAAA-AAATCA-C--AAGACATAAGAACTT-ACTATGCATAACATGATAAATTTCCATTTTA
*
118489 ACTTCTTAAAAATTTATAC
121 ACCTCTTAAAAATTTATAC
*
118508 TTTATCTTTGATTCTATAACGGATTTCGCCTCAAAATTCGAGTTACTATATTTAAAAATGAATCT
1 TTTATCTTTGATTCTATAAC-GATTTCGCCTCAAAATTCGAGTTTC-ATATTTAAAAATGAAT-T
* * *
118573 GAAAAAAATCACATGACACAAGAACTTAGCTATGCATAACATGATAAATTTTCATTTTAACCTCT
63 GAAAAAAATCACAAGACATAAGAACTTA-CTATGCATAACATGATAAATTTCCATTTTAACCTCT
*
118638 TAAAAATTTAAAC
127 TAAAAATTTATAC
118651 TTTATCTT
1 TTTATCTT
118659 CAATTTCCTA
Statistics
Matches: 239, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
142 38 0.16
143 82 0.34
144 8 0.03
145 77 0.32
146 34 0.14
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (139 bp):
TTTATCTTTGATTCTATAACGATTTCGCCTCAAAATTCGAGTTTCATATTTAAAAATGAATTGAA
AAAAATCACAAGACATAAGAACTTACTATGCATAACATGATAAATTTCCATTTTAACCTCTTAAA
AATTTATAC
Found at i:118877 original size:192 final size:192
Alignment explanation
Indices: 118518--118887 Score: 433
Period size: 192 Copynumber: 1.9 Consensus size: 192
118508 TTTATCTTTG
* * * *
118518 ATTCTATAACGGATTTCGCCTCAAAATTCGAGTTACTATATTTAAAAATGAATCTGAAAAAAATC
1 ATTCTATAACGGATTTCACCTCAAAATTCGAGTTACAATATTTAAAAAAGAAACTGAAAAAAATC
** * * * *
118583 ACATGACACAAGAACTTAGCTATGCATAACATGATAAATTTTCATTTTAACCTCTTAAAAATTTA
66 ACAACACAAAAGAACTTAGCTATGCATAACATGATAAATATCCATTTTAACCTCCTAAAAATTTA
*** * *
118648 AACTTTATCTTCAATTTCCTAATGGACTTCACCTCAAAATTTGAGTTTCAATTTTATATTGT
131 AACTTTATCTTCAATTTCCTAACAAACTTCACCTCAAAAATCGAGTTTCAATTTTATATTGT
* * * *
118710 ATTCTATAACGGATTTTACCTTAAAATTCGAGTTTCAATATTTAAAAAAGAAACTGGAAAAAATC
1 ATTCTATAACGGATTTCACCTCAAAATTCGAGTTACAATATTTAAAAAAGAAACTGAAAAAAATC
* * *
118775 ATAACACAAAAGAACTTCA-CTATGGATCACATCG-TAAATATCCATTTTAACCTCCTAAAAATT
66 ACAACACAAAAGAACTT-AGCTATGCATAACAT-GATAAATATCCATTTTAACCTCCTAAAAATT
* * * **
118838 TATATTTTATCTTTC-A-TTCCGTAACAAATTTTGCCTCAAAAATCGAGTTT
129 TAAACTTTATC-TTCAATTTCC-TAACAAACTTCACCTCAAAAATCGAGTTT
118888 TAATATTAAA
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
191 4 0.03
192 138 0.94
193 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.36
Consensus pattern (192 bp):
ATTCTATAACGGATTTCACCTCAAAATTCGAGTTACAATATTTAAAAAAGAAACTGAAAAAAATC
ACAACACAAAAGAACTTAGCTATGCATAACATGATAAATATCCATTTTAACCTCCTAAAAATTTA
AACTTTATCTTCAATTTCCTAACAAACTTCACCTCAAAAATCGAGTTTCAATTTTATATTGT
Found at i:119715 original size:481 final size:480
Alignment explanation
Indices: 118710--119950 Score: 1321
Period size: 481 Copynumber: 2.6 Consensus size: 480
118700 TTTATATTGT
* ** * * * * *
118710 ATTCTATAACGGATTTTACCTTAAAAT-TCGAGTTTCAATATTTAAAAAAGAAACTGGAAAAAAT
1 ATTCCATAACGGATTTCGCCTCAAAATCT-GAGATTCAATATTTAAAAATG-AATTTGAAAAAAT
* * * * * *
118774 CATAACACAAAAGAACTTCA-CTATGGATCACATCGTAAATATCCATTTTAACCTCCTAAAAATT
64 CATAAGACACAAGAACTT-AGCTATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATT
* * **
118838 TATATTTTATCTTTCATTCCGTAACAAATTTTGCC-TCAAAAATCGAGTTTTAATATTAAAAAA-
128 TATAATTTATCTTTCATTCCGTAACAAA-TTTGCCTTC-AAAATTGAGTTTTAATAACAAAAAAT
** * * * *
118901 AAAA--GGAAATCGTA--AAAACACGTGAACTTCGTTATGTATCACATGAATCTGTTAAAAACGT
191 AAAATTAAAAAACTTATTAAAACACGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAA--A
* * *
118962 AGACAACCCAAAATATCCAAGTGGATGGTGAAAAGATTATAAATTCAACATTTGTCAAACCCCTA
254 AGACAACCCAAAATATCCAAGTGGATAGTGAAAAGATTAGAAATCCAACATTTGTCAAACCCCTA
* * * *
119027 ATTGCATTCATCAAACTTCATTACTGTAGTACTAATTTTGTTTTCGTGATAATTACCAAATTGTG
319 ATTGCATTCATCAAACTACATTACTGTAGTACTAATTTTGATTTCATAATAATTACCAAATTGTG
* * * * * * *
119092 CAAACTTTAGTTCTACAGGTGTTGGTCTTCAAGAAAACCTCAACATATTGGAAATTTGGGTTGTC
384 CAAACATTAGTTCTAAAGGTGTAGATCTTCAACAAAACCTCAACATATTGGAAAATTAGGTTGTC
119157 CACAACACTTACATAATACCTATTTATCTTTG
449 CACAACACTTACATAATACCTATTTATCTTTG
* *
119189 ATTCCATAACGGATTTCGCCTCAAAATCTGAGATTCAATATTTAAAAATG-GTGTTCTAAAAAAT
1 ATTCCATAACGGATTTCGCCTCAAAATCTGAGATTCAATATTTAAAAATGAAT-TT-GAAAAAAT
* *
119253 CATAAGACACAAGAACTTAGCTATGAATCAAATGGTAAATTTCCATTTTAACCTCTTAAAAATTC
64 CATAAGACACAAGAACTTAGCTATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTT
* * * * *
119318 ATAATTTATCTTTCATTCCGTAATAGATTTGGCCTTCAAATTTGAGTTTTAAGAAGAAAAAATAA
129 ATAATTTATCTTTCATTCCGTAACAAATTT-GCCTTCAAAATTGAGTTTTAATAACAAAAAATAA
* ** *
119383 AATTTAAAACAACTTATTAAAACACGTGAACTTCACTATAAATCACATGAATCTGTTAAAAAAAA
193 AA-TTAAAA-AACTTATTAAAACACGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAAAAG
* * * *
119448 ACAACCCCAAATATCCAAGTTGATAGTGAAAAGATTGGAAATCCACCATTTGTC-AACCCCTAAT
256 ACAACCCAAAATATCCAAGTGGATAGTGAAAAGATTAGAAATCCAACATTTGTCAAACCCCTAAT
*
119512 TGCATTCATCAAAC-ACA-TACTGTAGTATTAATTTTGATTTCATAATAATTACCAAATTCG-GC
321 TGCATTCATCAAACTACATTACTGTAGTACTAATTTTGATTTCATAATAATTACCAAATT-GTGC
* ** ** * *
119574 AAACATTAGTTTTATAAGG-GTAGATCTTTTACAAAATGTCATCGTATT-GACAAATTAGGTTGT
385 AAACATTAGTTCTA-AAGGTGTAGATCTTCAACAAAACCTCAACATATTGGA-AAATTAGGTTGT
* * *
119637 CCTCAACATTTACATAATAGCTATTTATCTTTG
448 CCACAACACTTACATAATACCTATTTATCTTTG
** * * *
119670 ATTCTGTAACGGACTTT-GCCTTGC-AATTC-GAGTTTTAATATTTAAAAATGAATTTGAAAATA
1 ATTCCATAACGGA-TTTCGCC-T-CAAAATCTGAGATTCAATATTTAAAAATGAATTTGAAAA-A
* *** * ** *
119732 AACATAAGACACAAGAACACCGCTATGAATCACATGGTGAATTTTGATTTTAACCTCTTCAAAAT
62 ATCATAAGACACAAGAACTTAGCTATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAAT
* * * * * ** * *
119797 TTACACTTTATCTTTCATTTCGTAACAAACTTACCTAAAAAATTGAATTTTAATAACTAAAAATA
127 TTATAATTTATCTTTCATTCCGTAACAAATTTGCCTTCAAAATTGAGTTTTAATAACAAAAAATA
* * * *
119862 AAATTAAAAAGAATTGATTAAAACACGTGAACTTTGCTATGTATCACATGATTATGTTAAAAAAT
192 AAATTAAAAA-ACTT-ATTAAAACACGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAAA-
*
119927 AGACAACCCTAAATATCCAAGTGG
254 AGACAACCCAAAATATCCAAGTGG
119951 GTGTTGAATG
Statistics
Matches: 632, Mismatches: 106, Indels: 46
0.81 0.14 0.06
Matches are distributed among these distances:
478 6 0.01
479 160 0.25
480 83 0.13
481 249 0.39
482 15 0.02
483 27 0.04
484 52 0.08
486 40 0.06
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (480 bp):
ATTCCATAACGGATTTCGCCTCAAAATCTGAGATTCAATATTTAAAAATGAATTTGAAAAAATCA
TAAGACACAAGAACTTAGCTATGAATCACATGGTAAATTTCCATTTTAACCTCTTAAAAATTTAT
AATTTATCTTTCATTCCGTAACAAATTTGCCTTCAAAATTGAGTTTTAATAACAAAAAATAAAAT
TAAAAAACTTATTAAAACACGTGAACTTCGCTATGTATCACATGAATCTGTTAAAAAAAGACAAC
CCAAAATATCCAAGTGGATAGTGAAAAGATTAGAAATCCAACATTTGTCAAACCCCTAATTGCAT
TCATCAAACTACATTACTGTAGTACTAATTTTGATTTCATAATAATTACCAAATTGTGCAAACAT
TAGTTCTAAAGGTGTAGATCTTCAACAAAACCTCAACATATTGGAAAATTAGGTTGTCCACAACA
CTTACATAATACCTATTTATCTTTG
Found at i:121455 original size:702 final size:700
Alignment explanation
Indices: 120102--121462 Score: 1873
Period size: 702 Copynumber: 1.9 Consensus size: 700
120092 AACTATCTCA
* * * *
120102 TTAAGCGGCAGCCGGTGGCTTTGACCTATTAAAAATAATAATATTACTTTATAACCGTTCAAAAT
1 TTAAGCGACAGCCGGTGACTTTGACCTACTAAAAATAATAATATTACTTTATAACAGTTCAAAAT
* * *
120167 ATAAAAAATAAAAAATTAATATGACTTTTTAAAAGAATTATATTTTATCTTGTATTCCGTAATAG
66 ATAAAAAATAAAAAATTAATATGACTTTCTAAAAGAATTATATTTTATCTTCTATTCCGTAAGAG
* * *
120232 ACTTTGCCATAAAATTCGGTTTTAAAATTTAAAATGAAACTGAAAAAATCATAAGACACAAGAAT
131 ACTTTACCATAAAATTCGGTTTCAAAATTTAAAATGAAACTGAAAAAATCATAAGACACAAGAAC
* * * *
120297 TTCATTATGCATCAGATGGTAAATTTCCAATTTAACCTCTTAAAAAATTAATACTTTATCTTTCA
196 TTCACTATGCATCACATGGTAAATTTACAATTTAACCTCTTAAAAAATTAATACTTTATCATTCA
* *
120362 TTTAGTAATAGACTTCGCCTAAAATTCGAGTTTTAATATTTAAAAATAAAATTAAAAAGAAATCA
261 TTCAGTAATAGACTTCGCCTAAAAATCGAGTTTTAATATTT---AATAAAATTAAAAAGAAATCA
* *
120427 TAAAAATACGTGAACTTCTTTATGTATCACAAGAATCTGTTAAAAAAATAGGCAACTCTAAATAT
323 TAAAAACACGTGAACTTCTTTATGTATCACAAGAATCTGTTAAAAAAACAGGCAACTCTAAATAT
* * **
120492 CCAAGTGGATGGTGAAAAGATTGTAAATCCAACATTTGTCAAACCCCCTAATTGCATTCATCAAA
388 CCAAGTGGATGATAAAAAGATTGTAAATCCAACATCGGTCAAACCCCCTAATTGCATTCATCAAA
** *
120557 GTTAATAAGTGTAGTACTAATTTTGTTTTCATGATAATTACCAAATTAGGCAAACTTTAGTTCTA
453 CATAATAAGTGTACTACTAATTTTGTTTTCATGATAATTACCAAATTAGGCAAACTTTAGTTCTA
* * * *
120622 CAAGTGTTGGTCTTCAACAAAACCTCAACATATTGGCATTTTAGGTTGTCCACAATACGTGCATA
518 CAAGTGTTGGTCTTCAACAAAACCTCAACATATGGGCAATTTAGGTTGTCCACAAAACGTGCACA
* * * *
120687 ATAGCTATTTATTTTTATTTCGTAACAAATTTCGTCTCAAAATTCGAGTTTCATTATTTAAAAAT
583 ATAACTATTTATTTTGATTCCGTAACAAATTTCGTCTCAAAATTCGAGTTTCAATATTTAAAAAT
120752 GAAATTGAAAAAAAAGACATAAGACACAAGAACGTTGCTATGAATCACATTAT
648 GAAATTGAAAAAAAAGACATAAGACACAAGAACGTTGCTATGAATCACATTAT
* *
120805 TTAAGCGACAGGCGGTGACTTTGACCTACTGAAAATAATAATATTACTTTATAACAGTTCAAAAT
1 TTAAGCGACAGCCGGTGACTTTGACCTACTAAAAATAATAATATTACTTTATAACAGTTCAAAAT
* * *
120870 TTAAAAAATAATAAAA-TAATGTGAC-TTCTAAAAGAATTATATTTTATCTTCTATTCTGTAAGA
66 ATAAAAAATAA-AAAATTAATATGACTTTCTAAAAGAATTATATTTTATCTTCTATTCCGTAAGA
* * *
120933 GATTTTACCTTAAAATTCGAGTTTCAATATTTAAAAATGAAACTAGAAAAAATCATAAGACACAA
130 GACTTTACCATAAAATTCG-GTTTCAAAATTT-AAAATGAAACT-GAAAAAATCATAAGACACAA
* * * * *
120998 GAACTTCACTATGGATCACATGGTAAATTTATATTTTAACCTCTT-AAAACTTTATACTTTTCAT
192 GAACTTCACTATGCATCACATGGTAAATTTACAATTTAACCTCTTAAAAAATTAATAC-TTT-A-
* *
121062 TCATTCATTCCGTAATAGACTTTGCCTCAAAAATCGAGTTTTAATATTT-A-AAAA-TAAAAAGA
254 TCATTCATTCAGTAATAGACTTCGCCT-AAAAATCGAGTTTTAATATTTAATAAAATTAAAAAGA
**
121124 AATCATAAAAACACGTGAACTTCTTTATGTATCA-AATGAATCTGTTAAAAACGCAGGCAAC-CT
318 AATCATAAAAACACGTGAACTTCTTTATGTATCACAA-GAATCTGTTAAAAAAACAGGCAACTC-
* *
121187 TAAATATCCAAGTGGTTGATAAAAAGATTGTAAATCCAACATCGGTCAAACCCGCTAATTGCATT
381 TAAATATCCAAGTGGATGATAAAAAGATTGTAAATCCAACATCGGTCAAACCCCCTAATTGCATT
* * * *
121252 CATCAAACATCATTATTGTACTACTAATTTTGTTTTCATGATAATTACCAAATTGGGCAAACTTT
446 CATCAAACATAATAAGTGTACTACTAATTTTGTTTTCATGATAATTACCAAATTAGGCAAACTTT
** ** * * *
121317 AGTTCTACAAAG-GTTGGTCTTTTACAAAATGTCAACGTATGGGCAATTTGGGTTGTCCTCAAAA
511 AGTTCTAC-AAGTGTTGGTCTTCAACAAAACCTCAACATATGGGCAATTTAGGTTGTCCACAAAA
* * * * *
121381 CTTGCACAGTAATTATTTATCTTTGATTCCGT-ACTAGATTT-TTCATCAAAATTCGAGTTTCAA
575 CGTGCACAATAACTATTTAT-TTTGATTCCGTAAC-AAATTTCGTC-TCAAAATTCGAGTTTCAA
121444 TATTT-AAAATGAAATTGAA
637 TATTTAAAAATGAAATTGAA
121463 TGAAATTGAA
Statistics
Matches: 576, Mismatches: 68, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
701 3 0.01
702 312 0.54
703 130 0.23
704 26 0.05
705 61 0.11
706 1 0.00
707 23 0.04
708 20 0.03
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (700 bp):
TTAAGCGACAGCCGGTGACTTTGACCTACTAAAAATAATAATATTACTTTATAACAGTTCAAAAT
ATAAAAAATAAAAAATTAATATGACTTTCTAAAAGAATTATATTTTATCTTCTATTCCGTAAGAG
ACTTTACCATAAAATTCGGTTTCAAAATTTAAAATGAAACTGAAAAAATCATAAGACACAAGAAC
TTCACTATGCATCACATGGTAAATTTACAATTTAACCTCTTAAAAAATTAATACTTTATCATTCA
TTCAGTAATAGACTTCGCCTAAAAATCGAGTTTTAATATTTAATAAAATTAAAAAGAAATCATAA
AAACACGTGAACTTCTTTATGTATCACAAGAATCTGTTAAAAAAACAGGCAACTCTAAATATCCA
AGTGGATGATAAAAAGATTGTAAATCCAACATCGGTCAAACCCCCTAATTGCATTCATCAAACAT
AATAAGTGTACTACTAATTTTGTTTTCATGATAATTACCAAATTAGGCAAACTTTAGTTCTACAA
GTGTTGGTCTTCAACAAAACCTCAACATATGGGCAATTTAGGTTGTCCACAAAACGTGCACAATA
ACTATTTATTTTGATTCCGTAACAAATTTCGTCTCAAAATTCGAGTTTCAATATTTAAAAATGAA
ATTGAAAAAAAAGACATAAGACACAAGAACGTTGCTATGAATCACATTAT
Found at i:121724 original size:145 final size:142
Alignment explanation
Indices: 121472--121846 Score: 406
Period size: 142 Copynumber: 2.6 Consensus size: 142
121462 ATGAAATTGA
* * ** * * * *
121472 AAAAAAATCATAAGTCACAAGAATTTCCCCATGAATCACATGATAAATTT---TTTTATCCACTT
1 AAAAAAA-CATAAGACACAAGAACTTAGCTATGCATCACATGATAAATTTCCATTTTAACCTCTT
* * * *
121534 AAAAATTTATACTTTATCATTGATTCTTTCATACGCTTTGCCTCAAAATTCA-AGTTTCAATATT
65 AAAAATTTATACTTTATCTTTGATTCTATCATACGCTTCGCCTCAAAATT-AGAGTTACAATATT
121598 TAAAAATGAAAT-TG
129 TAAAAATG-AATCTG
* * * * *
121612 AAAATAAAACCATAAGACATAATAACTTCA-CTATGCATCACATGGTAAATTTCCATTTTTACTT
1 -AAA-AAAA-CATAAGACACAAGAACTT-AGCTATGCATCACATGATAAATTTCCATTTTAACCT
* *
121676 CTTAAAAATTTATACTTTATCTTTGATTCTAT-A-ACGGACTTCGTCTCAAAATTAGAGTTACTA
62 CTTAAAAATTTATACTTTATCTTTGATTCTATCATAC-G-CTTCGCCTCAAAATTAGAGTTACAA
121739 TATTTAAAAATGAATCTG
125 TATTTAAAAATGAATCTG
* * *
121757 AAAAAAATATAAGACACAAGAACTTAGCTGTGCATCACATGATAAATTTTCATTTTAACCTCTTA
1 AAAAAAACATAAGACACAAGAACTTAGCTATGCATCACATGATAAATTTCCATTTTAACCTCTT-
121822 AAAAATTTATACTTTATCTTTGATT
65 AAAAATTTATACTTTATCTTTGATT
121847 TCCTTATGGA
Statistics
Matches: 196, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
141 4 0.02
142 84 0.43
143 31 0.16
144 9 0.05
145 68 0.35
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (142 bp):
AAAAAAACATAAGACACAAGAACTTAGCTATGCATCACATGATAAATTTCCATTTTAACCTCTTA
AAAATTTATACTTTATCTTTGATTCTATCATACGCTTCGCCTCAAAATTAGAGTTACAATATTTA
AAAATGAATCTG
Found at i:123305 original size:26 final size:27
Alignment explanation
Indices: 123276--123333 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
123266 AAAATGAGAC
*
123276 TTTTGGATAC-GGGGGTAAAATAGTAA
1 TTTTGGATACTGGGGGCAAAATAGTAA
* *
123302 TTTTGGATGCTTGGGGGCAAAATGGTAA
1 TTTTGGATAC-TGGGGGCAAAATAGTAA
123330 TTTT
1 TTTT
123334 TGGAAGGCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.36
Consensus pattern (27 bp):
TTTTGGATACTGGGGGCAAAATAGTAA
Found at i:123335 original size:29 final size:28
Alignment explanation
Indices: 123286--123396 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 28
123276 TTTTGGATAC
* *
123286 GGGGGTAAAATAGTAA-TTTTGGATGCTT
1 GGGGGCAAAATGGTAATTTTTGGA-GCTT
*
123314 GGGGGCAAAATGGTAATTTTTGGAAGGCTC
1 GGGGGCAAAATGGTAATTTTTGG-A-GCTT
* *
123344 GAGGTCAAAAATGG-AATTTTTGGA-CATCT
1 GGGGGC-AAAATGGTAATTTTTGGAGC-T-T
* *
123373 AGGGGTAAAATGGTAATTTTTGGA
1 GGGGGCAAAATGGTAATTTTTGGA
123397 AGGTTTCGGA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 22 0.33
29 19 0.29
30 17 0.26
31 7 0.11
ACGTcount: A:0.31, C:0.06, G:0.32, T:0.32
Consensus pattern (28 bp):
GGGGGCAAAATGGTAATTTTTGGAGCTT
Found at i:123365 original size:59 final size:58
Alignment explanation
Indices: 123313--123716 Score: 395
Period size: 59 Copynumber: 6.9 Consensus size: 58
123303 TTTGGATGCT
* * * *
123313 TGGGGGCAAAATGGTAATTTTTGGAAGGCTCGAGGTCAAAAATGGAATTTTTGGACATC
1 TGGGGGTAAAATGGTAATTTTTGGAAGGTTC-AGGTCAAAAATGGAGTTTTTAGACATC
* *
123372 TAGGGGTAAAATGGTAATTTTTGGAAGGTTTC-GGATAAAAAATGGAGTTTTTAGACATC
1 TGGGGGTAAAATGGTAATTTTTGGAAGG-TTCAGG-TCAAAAATGGAGTTTTTAGACATC
* * * * * * *
123431 CGGGGGTAAAATGGTAAATTTTGGAAGGTTAAAGATAAAAAATAGAGTTTTTAAACATC
1 TGGGGGTAAAATGGTAATTTTTGGAAGGTT-CAGGTCAAAAATGGAGTTTTTAGACATC
* * * * * *
123490 CGGGGGTAAAATGATAATTTTTGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGA-AGT-
1 TGGGGGTAAAATGGTAATTTTTGGAAGGTTCA-GGTCAAAAATGGAGTTTTTAGACA-TC
* *
123548 TCAGGGCTAAAATGGTAA-TTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACAT-
1 T-GGGGGTAAAATGGTAATTTTTGGAAGGTTCAGG-TCAAAAATGGAGTTTTTAGACATC
* * * *
123606 TCGAGAGTAAAATGGTAAATTTTGGAAGGTTCAGGATCAAAAACGGAGTTTTTAGACATC
1 T-GGGGGTAAAATGGTAATTTTTGGAAGGTTCAGG-TCAAAAATGGAGTTTTTAGACATC
* * ** * *
123666 CGGAGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTCAAAAATGGAATTTT
1 TGGGGGTAAAATGGTAATTTTTGGAAGGTTC-AGGTCAAAAATGGAGTTTT
123717 GGAAAGTTTA
Statistics
Matches: 286, Mismatches: 47, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
57 2 0.01
58 51 0.18
59 227 0.79
60 6 0.02
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (58 bp):
TGGGGGTAAAATGGTAATTTTTGGAAGGTTCAGGTCAAAAATGGAGTTTTTAGACATC
Found at i:123500 original size:118 final size:119
Alignment explanation
Indices: 123314--123716 Score: 438
Period size: 118 Copynumber: 3.4 Consensus size: 119
123304 TTGGATGCTT
* * * * * * * **
123314 GGGGGCAAAATGGTAATTTTTGGAAGGCTCGAGGTCAAAAATGGAATTTTTGGACATCTAGGGGT
1 GGGGGTAAAATGGTAAATTTTGGAAGGTTCAAGATCAAAAATGGAGTTTTTAGACATCCGGGGGT
*
123379 AAAATGGTAATTTTTGGAAGGTTTC-GGATAAAAAATGGAGTTTTTAGACATCC
66 AAAATGGTAATTTTTGGAAGGTTTCAGGATCAAAAATGGAGTTTTTAGACATCC
* * * *
123432 GGGGGTAAAATGGTAAATTTTGGAAGGTTAAAGATAAAAAATAGAGTTTTTAAACATCCGGGGGT
1 GGGGGTAAAATGGTAAATTTTGGAAGGTTCAAGATCAAAAATGGAGTTTTTAGACATCCGGGGGT
* * * * * *
123497 AAAATGATAATTTTT-GAAAGTTTCAGGGTCAAAAATGGAATTTTTGGA-AGTTC
66 AAAATGGTAATTTTTGGAAGGTTTCAGGATCAAAAATGGAGTTTTTAGACA-TCC
* * * * * *
123550 AGGGCTAAAATGGT-AATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGAGT
1 GGGGGTAAAATGGTAAATTTTGGAAGGTTCAAGATCAAAAATGGAGTTTTTAGACATCCGGGGGT
* *
123614 AAAATGGTAAATTTTGGAAGG-TTCAGGATCAAAAACGGAGTTTTTAGACATCC
66 AAAATGGTAATTTTTGGAAGGTTTCAGGATCAAAAATGGAGTTTTTAGACATCC
* * ** * * * *
123667 GGAGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTCAAAAATGGAATTTT
1 GGGGGTAAAATGGTAAATTTTGGAAGGTTCAAGATCAAAAATGGAGTTTT
123717 GGAAAGTTTA
Statistics
Matches: 231, Mismatches: 49, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
117 100 0.43
118 131 0.57
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (119 bp):
GGGGGTAAAATGGTAAATTTTGGAAGGTTCAAGATCAAAAATGGAGTTTTTAGACATCCGGGGGT
AAAATGGTAATTTTTGGAAGGTTTCAGGATCAAAAATGGAGTTTTTAGACATCC
Found at i:123525 original size:29 final size:27
Alignment explanation
Indices: 123493--123863 Score: 97
Period size: 29 Copynumber: 12.7 Consensus size: 27
123483 AAACATCCGG
123493 GGGTAAAATGATAATTTTTGAAAGTTTCA
1 GGGTAAAATG-TAATTTTTGAAAG-TTCA
* *
123522 GGGTCAAAAATGGAATTTTTGGAAGTTCA
1 GGGT--AAAATGTAATTTTTGAAAGTTCA
* *
123551 GGGCTAAAATGGTAATTTTGGAAGGTTCA
1 GGG-TAAAAT-GTAATTTTTGAAAGTTCA
* * * *
123580 GGATCAAAAATGGAGTTTTTAGACA-TTCGA
1 GGGT--AAAATGTAATTTTT-GAAAGTTC-A
* * *
123610 GAGTAAAATGGTAAATTTTGGAAGGTTCA
1 GGGTAAAAT-GT-AATTTTTGAAAGTTCA
* * * * * * *
123639 GGATCAAAAACGGAGTTTTTAGACA-TCCG
1 GGGT--AAAATGTAATTTTT-GAAAGTTCA
*
123668 GAGGTAAAATGGTAATTTTTAAAAGTTTC-
1 G-GGTAAAAT-GTAATTTTTGAAAG-TTCA
* * *
123697 GAGGTCAAAAATGGAATTTTGGAAAGTTTA
1 G-GGT--AAAATGTAATTTTTGAAAGTTCA
*
123727 GGGGTAAAAATGTAA-TTATGAAAAGATT-A
1 -GGGT-AAAATGTAATTTTTG-AAAG-TTCA
* * *
123756 GGGTCAAAAATGGAATTTTAGAAAGTT-T
1 GGGT--AAAATGTAATTTTTGAAAGTTCA
**
123784 GAGGTAAAAATGTAATTTTTGGAAAAATCA
1 G-GGT-AAAATGTAATTTTT-GAAAGTTCA
* * *
123814 AGGTCAAAATGGAATTTTTGAGAAGTTTA
1 GGGT-AAAATGTAATTTTTGA-AAGTTCA
* *
123843 GGGGTTAGAATATAATTTTTG
1 -GGG-TAAAATGTAATTTTTG
123864 GATAGTTTAG
Statistics
Matches: 248, Mismatches: 62, Indels: 63
0.66 0.17 0.17
Matches are distributed among these distances:
28 42 0.17
29 119 0.48
30 70 0.28
31 17 0.07
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (27 bp):
GGGTAAAATGTAATTTTTGAAAGTTCA
Found at i:123569 original size:28 final size:30
Alignment explanation
Indices: 123496--123640 Score: 115
Period size: 30 Copynumber: 4.9 Consensus size: 30
123486 CATCCGGGGG
* *
123496 TAAAATGATAATTTTTGAAAGTTTCAGGGTC
1 TAAAATGGTAATTTTTGGAAG-TTCAGGGTC
*
123527 AAAAATGG-AATTTTTGGAAGTTCAGGG-C
1 TAAAATGGTAATTTTTGGAAGTTCAGGGTC
*
123555 TAAAATGGTAA-TTTTGGAAGGTTCAGGATC
1 TAAAATGGTAATTTTTGGAA-GTTCAGGGTC
* * * *
123585 AAAAATGG-AGTTTTTAGACA-TTCGAGAG--
1 TAAAATGGTAATTTTTGGA-AGTTC-AGGGTC
*
123613 TAAAATGGTAAATTTTGGAAGGTTCAGG
1 TAAAATGGTAATTTTTGGAA-GTTCAGG
123641 ATCAAAAACG
Statistics
Matches: 90, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
28 24 0.27
29 29 0.32
30 30 0.33
31 7 0.08
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (30 bp):
TAAAATGGTAATTTTTGGAAGTTCAGGGTC
Found at i:123629 original size:117 final size:117
Alignment explanation
Indices: 123316--123686 Score: 403
Period size: 117 Copynumber: 3.2 Consensus size: 117
123306 GGATGCTTGG
* * * *
123316 GGGC-AAAATGGTAATTTTTGGAAGGCTCGAGG-TCAAAAATGGAATTTTTGGACA-TCTAGGGG
1 GGGCTAAAATGGTAA-TTTTGGAAGGTTC-AGGATCAAAAATGGAGTTTTTAGACATTCGA-GGG
* * *
123378 TAAAATGGTAATTTTTGGAAGGTTTC-GGATAAAAAATGGAGTTTTTAGACATCCG
63 TAAAATGGTAATTTTT-GAAAGTTTCAGGATCAAAAATGGAGTTTTTAGACATCCA
* * * * * * * *
123433 GGGGTAAAATGGTAAATTTTGGAAGGTTAAAGATAAAAAATAGAGTTTTTAAACATCCGGGGGTA
1 GGGCTAAAATGGT-AATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGGGTA
* * * * *
123498 AAATGATAATTTTTGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGA-AGTTCA
65 AAATGGTAATTTTTGAAAGTTTCAGGATCAAAAATGGAGTTTTTAGACA-TCCA
*
123551 GGGCTAAAATGGTAATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGAGTAA
1 GGGCTAAAATGGTAATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGGGTAA
* * * *
123616 AATGGTAAATTTTGGAAGGTTCAGGATCAAAAACGGAGTTTTTAGACATCC-
66 AATGGTAATTTTTGAAAGTTTCAGGATCAAAAATGGAGTTTTTAGACATCCA
*
123667 GGAGGTAAAATGGTAATTTT
1 GG-GCTAAAATGGTAATTTT
123687 TAAAAGTTTC
Statistics
Matches: 207, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
116 2 0.01
117 114 0.55
118 88 0.43
119 3 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (117 bp):
GGGCTAAAATGGTAATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGGGTAA
AATGGTAATTTTTGAAAGTTTCAGGATCAAAAATGGAGTTTTTAGACATCCA
Found at i:123631 original size:176 final size:175
Alignment explanation
Indices: 123314--123807 Score: 583
Period size: 176 Copynumber: 2.8 Consensus size: 175
123304 TTGGATGCTT
* * **
123314 GGGGGCAAAATGGTAATTTTTGGAAGGCTCGAGGTCAAAAATGGAATTTTTGGACA--TCTAGGG
1 GGGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGA-AGTTC-AGGG
* * *
123377 GTAAAATGGTAATTTTTGGAAGGTTTC-GGATAAAAAATGGAGTTTTTAGACATCCGGGGGTAAA
64 GTAAAATGGTAA-TTTTGGAAGG-TTCAGGATCAAAAATGGAGTTTTTAGACATTC-GAGGTAAA
*
123441 ATGGTAAATTTTGGAAGGTTAAAGATAAAAAATAGAGTTTTTAAACATCC
126 ATGGTAAATTTTGGAAGGTTAAAGATAAAAAACAGAGTTTTTAAACATCC
* *
123491 GGGGGTAAAATGATAATTTTTGAAAGTTTC-AGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGC
1 GGGGGTAAAATGGTAATTTTTGAAAGTTTCGA-GGTCAAAAATGGAATTTTTGGAAGTTCAGGGG
123555 TAAAATGGTAATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGAGTAAAATG
65 TAAAATGGTAATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAG-GTAAAATG
* * * * *
123620 GTAAATTTTGGAAGGTTCAGGATCAAAAACGGAGTTTTTAGACATCC
129 GTAAATTTTGGAAGGTTAAAGATAAAAAACAGAGTTTTTAAACATCC
* * *
123667 GGAGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTCAAAAATGGAA-TTTTGGAAAGTTTAGGGG
1 GGGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGG-AAGTTCAGGGG
* * * * * * *
123731 TAAAAAT-GTAATTATGAAAAGATT-AGGGTCAAAAATGGA-ATTTTAGAAAGTTTGAGGTAAAA
65 T-AAAATGGTAATTTTG-GAAGGTTCAGGATCAAAAATGGAGTTTTTAGACA-TTCGAGGT-AAA
*
123793 AT-GTAATTTTTGGAA
126 ATGGTAAATTTTGGAA
123808 AAATCAAGGT
Statistics
Matches: 278, Mismatches: 28, Indels: 24
0.84 0.08 0.07
Matches are distributed among these distances:
175 33 0.12
176 170 0.61
177 73 0.26
178 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (175 bp):
GGGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGT
AAAATGGTAATTTTGGAAGGTTCAGGATCAAAAATGGAGTTTTTAGACATTCGAGGTAAAATGGT
AAATTTTGGAAGGTTAAAGATAAAAAACAGAGTTTTTAAACATCC
Found at i:123733 original size:59 final size:58
Alignment explanation
Indices: 123315--123847 Score: 286
Period size: 59 Copynumber: 9.1 Consensus size: 58
123305 TGGATGCTTG
* * * * * *
123315 GGGGCAAAATGGTAATTTTTGGAAGGCTCGAGGTCAAAAATGGAATTTTTGGACATCTA
1 GGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTCAAAAATGGAA-TTTTAGAAATTTA
* * * * * ***
123374 GGGGTAAAATGGTAATTTTTGGAAGGTTTCG-GATAAAAAATGGAGTTTTTAGACATCCG
1 GGGGTAAAATGGTAATTTTTGAAAGG-TTCGAGGTCAAAAATGGA-ATTTTAGAAATTTA
* * ** * * * * ***
123433 GGGGTAAAATGGTAAATTTTGGAAGGTTAAAGATAAAAAATAGAGTTTTTA-AACATCCG
1 GGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTCAAAAATGGA-ATTTTAGAA-ATTTA
* * * * *
123492 GGGGTAAAATGATAATTTTTGAAAGTTTC-AGGGTCAAAAATGGAATTTTTGGAAGTTCA
1 GGGGTAAAATGGTAATTTTTGAAAGGTTCGA-GGTCAAAAATGGAA-TTTTAGAAATTTA
* * * * *
123551 GGGCTAAAATGGTAA-TTTTGGAAGGTTC-AGGATCAAAAATGGAGTTTTTAGACA-TTC
1 GGGGTAAAATGGTAATTTTTGAAAGGTTCGAGG-TCAAAAATGGA-ATTTTAGAAATTTA
* * * * * * **
123608 GAGAGTAAAATGGTAAATTTTGGAAGGTTC-AGGATCAAAAACGGAGTTTTTAGACA-TCC
1 G-GGGTAAAATGGTAATTTTTGAAAGGTTCGAGG-TCAAAAATGGA-ATTTTAGAAATTTA
* * *
123667 GGAGGTAAAATGGTAATTTTTAAAAGTTTCGAGGTCAAAAATGGAATTTTGGAAAGTTTA
1 GG-GGTAAAATGGTAATTTTTGAAAGGTTCGAGGTCAAAAATGGAATTTTAGAAA-TTTA
* * *
123727 GGGGTAAAAAT-GTAA-TTATGAAAAGATTAG-GGTCAAAAATGGAATTTTAGAAAGTTT-
1 GGGGT-AAAATGGTAATTTTTG-AAAGGTTCGAGGTCAAAAATGGAATTTTAGAAA-TTTA
* ** * *
123784 GAGGTAAAAAT-GTAATTTTTGGAAA-AATCAAGGTC-AAAATGGAATTTTTGAGAAGTTTA
1 GGGGT-AAAATGGTAATTTTT-GAAAGGTTCGAGGTCAAAAATGGAA-TTTT-AGAAATTTA
123843 GGGGT
1 GGGGT
123848 TAGAATATAA
Statistics
Matches: 388, Mismatches: 63, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
57 29 0.07
58 99 0.26
59 244 0.63
60 16 0.04
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGAAAGGTTCGAGGTCAAAAATGGAATTTTAGAAATTTA
Found at i:123823 original size:57 final size:60
Alignment explanation
Indices: 123673--123865 Score: 211
Period size: 58 Copynumber: 3.3 Consensus size: 60
123663 ATCCGGAGGT
* * *
123673 AAAATGGTAATTTTT--AAAAGTTTCGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 AAAAT-GTAATTTTTGGAAAAG-ATCAAGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGTA
* * * *
123733 AAAATGTAA-TTAT-GAAAAGATTAGGGTCAAAAATGGAATTTTAGAAAGTTT-GAGGTA
1 AAAATGTAATTTTTGGAAAAGATCAAGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGTA
* *
123790 AAAATGTAATTTTTGGAAAA-ATCAAGGTC-AAAATGGAATTTTTGAGAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAAAGATCAAGGTCAAAAATGGAATTTTAGA-AAGTTTAGGGGTA
* *
123849 AGAATATAATTTTTGGA
1 AAAATGTAATTTTTGGA
123866 TAGTTTAGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
57 29 0.26
58 46 0.41
59 33 0.29
60 5 0.04
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (60 bp):
AAAATGTAATTTTTGGAAAAGATCAAGGTCAAAAATGGAATTTTAGAAAGTTTAGGGGTA
Found at i:124993 original size:15 final size:16
Alignment explanation
Indices: 124975--125010 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
124965 TACTATTAAC
*
124975 ATTATTACTAATA-TT
1 ATTATTAATAATATTT
124990 ATTATTAATAATATTT
1 ATTATTAATAATATTT
125006 ATTAT
1 ATTAT
125011 ATTATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTAATAATATTT
Found at i:125013 original size:21 final size:20
Alignment explanation
Indices: 124989--125033 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
124979 TTACTAATAT
*
124989 TATTATTAATAATATTTATTA
1 TATTATAAATAATA-TTATTA
125010 TATTATAAATAATATTATTA
1 TATTATAAATAATATTATTA
125030 -ATTA
1 TATTA
125034 CTATTAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
21 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTATAAATAATATTATTA
Found at i:125698 original size:6 final size:6
Alignment explanation
Indices: 125683--125773 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
125673 TGTAATTGAT
* * *
125683 TTTAAA TTTAAG TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
** * * * *
125729 TTTAAA AATGAA TTTAAG TTTAAA TTTAAA -GTAAA TTTAAT TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
125774 GAAATAAATC
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
4 3 0.05
5 8 0.13
6 48 0.76
7 4 0.06
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:125717 original size:17 final size:17
Alignment explanation
Indices: 125685--125752 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
125675 TAATTGATTT
*
125685 TAAATTTAAGTTTAAAA
1 TAAATTTAAATTTAAAA
* *
125702 T-TATTTCAAATTTAAAC
1 TAAATTT-AAATTTAAAA
125719 TAAATTTAAATTTAAAAA
1 TAAATTTAAATTT-AAAA
* *
125737 TGAATTTAAGTTTAAA
1 TAAATTTAAATTTAAA
125753 TTTAAAGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.10
17 19 0.46
18 18 0.44
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:125773 original size:23 final size:24
Alignment explanation
Indices: 125723--125773 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
125713 TTAAACTAAA
*
125723 TTTAAATTTAAAAATGAATTTAAG
1 TTTAAATTTAAAAATAAATTTAAG
* *
125747 TTTAAATTT-AAAGTAAATTTAAT
1 TTTAAATTTAAAAATAAATTTAAG
125770 TTTA
1 TTTA
125774 GAAATAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTAAATTTAAAAATAAATTTAAG
Found at i:126536 original size:194 final size:198
Alignment explanation
Indices: 126158--127079 Score: 915
Period size: 206 Copynumber: 4.6 Consensus size: 198
126148 CTTGGCCTTT
* * * ** * * *
126158 TTCTCAGTATCTCATCAGGAAGACGACTGCATCACTTTTTTTTGATCCACTTCTCTGTGTTTCAT
1 TTCTCAGTATCTCATCAGGAAGATGACCGCATCAC-TTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * * * * * *
126223 CAGAAAGA-AGGATTTGGTTCACTTCTCTGAATCTCATTAGGAAGCTAACCTTTTTTTTTCTTCG
65 CAGGAAGACA-AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCG
* * **
126287 CCCTACTTCTCAGTATCTCATCAGGAAGCT-AGGGGTCGAAGATTTG---TTTGC-ATTGAGTTG
129 ACCTACTTCTCAGTATCTCATCAGGAAGCTGA-GGTTCGAAGATTTGCCATCAGCGATTGAGTTG
*
126347 GTATAC
193 GTATTC
* * *
126353 TTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATC
1 TTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATC
* * * * *
126418 AGGAACACAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCTTTTTATTGTTTCGCC
66 AGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGAC
* *
126483 CTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCATTGAGCGTGGGTTTG
131 CTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTG--C-CA-TCAGC----GATTG
* *
126548 ATTTGGTCTTC
188 AGTTGGTATTC
* *
126559 TTCTCAGTATCTCATCAGGAAGTTGACCGCATCTCTTGTTTC-ATCCGCTTCTCTGTATCTCATC
1 TTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATC
* ** * *
126623 GGGAAGATGAATTTGGTTCACTTCTCAGTATCTAATCAGGAAGCTAACCATTTTATTGCTTCGAC
66 AGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGAC
* ** * *
126688 CTGCTTCTCAGTATCTCATTCAGGAAATTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTT
131 CTACTTCTCAGTATCTCA-TCAGGAAGCTGAGGTTCGAAGATTTGC-C--ATC-AGC----GATT
* *
126753 GATTTGGTCTTC
187 GAGTTGGTATTC
* * ** *
126765 TTCTCAGTATCTCATCAAGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTGTCTCATC
1 TTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATC
* *
126830 AGGAAGA-AGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
66 AGGAAGACA-AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * * *
126894 CCTGCTTCTCAGTATCTTATCAGGAAGTTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTT
130 CCTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGC-C--ATC-AGC----GATT
* *
126959 GATTTGGTCTTC
187 GAGTTGGTATTC
* ** * *
126971 TTCTCAGTATCTCATCATGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTTTATCTCATT
1 TTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATC
*
127036 AGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
66 AGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
127080 CAGGGTTCAA
Statistics
Matches: 635, Mismatches: 71, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
194 117 0.18
195 32 0.05
201 3 0.00
204 2 0.00
205 95 0.15
206 290 0.46
207 96 0.15
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (198 bp):
TTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATC
AGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGAC
CTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCCATCAGCGATTGAGTTGGTA
TTC
Found at i:126751 original size:206 final size:206
Alignment explanation
Indices: 126352--127079 Score: 1127
Period size: 206 Copynumber: 3.5 Consensus size: 206
126342 AGTTGGTATA
* * **
126352 CTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * * *
126417 CAGGAACACAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCTTTTTATTGTTTCGC
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * ** *
126482 CCTACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCATTGAGCGTGGGTTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTT
126547 GATTTGGTCTT
196 GATTTGGTCTT
* *
126558 CTTCTCAGTATCTCATCAGGAAGTTGACCGCATC-TCTTGTTTC-ATCCGCTTCTCTGTATCTCA
1 CTTCTCAGTATCTCATCAGGAAGATGACCACATCGT-TTGTTTCAATCCGCTTCTCTGTATCTCA
* * * *
126621 TCGGGAAGATGAATTTGGTTCACTTCTCAGTATCTAATCAGGAAGCTAACCATTTTATTGCTTCG
65 TCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCG
*
126686 ACCTGCTTCTCAGTATCTCATTCAGGAAATTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGT
130 ACCTGCTTCTCAGTATCTCA-TCAGGAAGTTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGT
126751 TTGATTTGGTCTT
194 TTGATTTGGTCTT
* *
126764 CTTCTCAGTATCTCATCAAGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTGTCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * *
126829 CAGGAAGAAGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
*
126894 CCTGCTTCTCAGTATCTTATCAGGAAGTTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTT
126959 GATTTGGTCTT
196 GATTTGGTCTT
* * *
126970 CTTCTCAGTATCTCATCATGAAGATGACCGCATCGTTTGTTTCAATCCGCTTCTCTTTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
*
127035 TAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
127080 CAGGGTTCAA
Statistics
Matches: 477, Mismatches: 41, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
205 94 0.20
206 285 0.60
207 98 0.21
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (206 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCACATCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
CCTGCTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTT
GATTTGGTCTT
Found at i:127316 original size:39 final size:39
Alignment explanation
Indices: 127185--127333 Score: 110
Period size: 39 Copynumber: 3.8 Consensus size: 39
127175 GATAATCGCA
* * *
127185 ATCTGCCCC-GTGATCGGGGT-AGTAGATTGGTTGACGATG
1 ATCTGCCCCAG-GCTCGGGGTAAG-AGATCGGTTGATGATG
*** *
127224 ATCTGCCCCAGGCTCGGGACG-AA-AGATCAAATGATTG-TA
1 ATCTGCCCCAGGCTCGGG--GTAAGAGATCGGTTGA-TGATG
* * * *
127263 ATCTTCCTCTGGCTCGGGGTAAGAGATTGGTTGATGATG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGGTTGATGATG
*
127302 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGTT
1 ATCTGCCCCAGGCTCGGGGTAAGAGATCGGTT
127334 AACGATGTAG
Statistics
Matches: 82, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
37 1 0.01
38 4 0.05
39 73 0.89
40 2 0.02
41 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATCGGTTGATGATG
Found at i:127596 original size:101 final size:101
Alignment explanation
Indices: 127415--127596 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
127405 ACTTCGCTGT
* * * *
127415 AACTTCAAGAAGATAGGATTTGATGTTGAAGCTTCATCTTGCTCTTACTACAACTTCATAAAGAT
1 AACTTCAAGAAGATAAGAATTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAAAGAT
* *
127480 AAAGACTTGCTATTGTTTTTAATCTGACTTTACTGC
66 AAAGACTTACCATTGTTTTTAATCTGACTTTACTGC
* * * * *
127516 AACTTCAAGAGGATAAGAATTGATGTTAAAGCTTCATCTTGCTCTTGCTGCAACTTTAGAGAGAT
1 AACTTCAAGAAGATAAGAATTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAAAGAT
127581 AAAGACTTACCATTGT
66 AAAGACTTACCATTGT
127597 AGTTTTGATC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (101 bp):
AACTTCAAGAAGATAAGAATTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAAAGAT
AAAGACTTACCATTGTTTTTAATCTGACTTTACTGC
Found at i:127829 original size:100 final size:97
Alignment explanation
Indices: 127688--128057 Score: 305
Period size: 100 Copynumber: 3.7 Consensus size: 97
127678 ATCGGGTTCG
* *** ** * * *
127688 CCATTGCGACTTAAACCTTTCCCCTTCAAATCTTCGTGGTACTGGATTCGCCGTTACAGCTTAAA
1 CCATTGCGACTTAAACCTTTCCCTTTTGTATCTTCACGGTACTGGATCCGCCGTTGC-GCTTAGA
*
127753 TCTTTCCCTTCTTGTCTTCTGAGGTTCACGGTCCG
65 TCTTTCCCTTCTTGTC-TCTGAGGTTCA-GGTCCA
* * * * * *
127788 CCGTTGCGACTTAAACCTTTCCCTTTTGTATCTTTAAGGTACTGGATCCACAGTTGCGGTCTAGA
1 CCATTGCGACTTAAACCTTTCCCTTTTGTATCTTCACGGTACTGGATCCGCCGTTGCGCT-TAGA
* *
127853 TCTTTCCCTT-TATGTCTCTGAGGTACTAGGTCTA
65 TCTTTCCCTTCT-TGTCTCTGAGGTTC-AGGTCCA
* * * * * * * *
127887 CCATTGCGACTTAGATCTTTCCCTTCATG--TCTTCGCGGCATTGGATCCGTCGTTGTGGCTTAG
1 CCATTGCGACTTAAACCTTTCCCTT-TTGTATCTTCACGGTACTGGATCCGCCGTTG-CGCTTAG
* * * * *
127950 ATCTTTCCCATCATGTCTCTGAAGTATAAGGTTCA
64 ATCTTTCCCTTCTTGTCTCTGAGGT-TCAGGTCCA
* * * *
127985 CCGTTGCGACTTAAACCCTTCCCTTTTGTATCTTTACGGTACTGGATCCGTCGTTGCGGTCTTAG
1 CCATTGCGACTTAAACCTTTCCCTTTTGTATCTTCACGGTACTGGATCCGCCGTTGC-G-CTTAG
128050 ATCTTTCC
64 ATCTTTCC
128058 TGTCATGTTT
Statistics
Matches: 211, Mismatches: 48, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
97 2 0.01
98 68 0.32
99 63 0.30
100 78 0.37
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (97 bp):
CCATTGCGACTTAAACCTTTCCCTTTTGTATCTTCACGGTACTGGATCCGCCGTTGCGCTTAGAT
CTTTCCCTTCTTGTCTCTGAGGTTCAGGTCCA
Found at i:127969 original size:98 final size:99
Alignment explanation
Indices: 127791--128057 Score: 267
Period size: 98 Copynumber: 2.7 Consensus size: 99
127781 CGGTCCGCCG
* * * * * *
127791 TTGCGACTTAAACCTTTCCCTTTTGTATCTTTAAGGTACTGGATCC-ACAGTTGCGGTC-TAGAT
1 TTGCGACTTAAACCCTTCCCTTATG-ATCTTCACGGCACTGGATCCGTC-GTTGCGGTCTTAGAT
* * *
127854 CTTTCCCTTTATGTCTCTGAGGTACT-AGG-TCTACCA
64 CTTTCCCATCATGTCTCTGAAGTA-TAAGGTTC-ACCA
* * * * * *
127890 TTGCGACTTAGATCTTTCCCTTCATG-TCTTCGCGGCATTGGATCCGTCGTTGTGG-CTTAGATC
1 TTGCGACTTAAACCCTTCCCTT-ATGATCTTCACGGCACTGGATCCGTCGTTGCGGTCTTAGATC
*
127953 TTTCCCATCATGTCTCTGAAGTATAAGGTTCACCG
65 TTTCCCATCATGTCTCTGAAGTATAAGGTTCACCA
* * *
127988 TTGCGACTTAAACCCTTCCCTTTTGTATCTTTACGGTACTGGATCCGTCGTTGCGGTCTTAGATC
1 TTGCGACTTAAACCCTTCCCTTATG-ATCTTCACGGCACTGGATCCGTCGTTGCGGTCTTAGATC
128053 TTTCC
65 TTTCC
128058 TGTCATGTTT
Statistics
Matches: 137, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
97 4 0.03
98 71 0.52
99 47 0.34
100 15 0.11
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (99 bp):
TTGCGACTTAAACCCTTCCCTTATGATCTTCACGGCACTGGATCCGTCGTTGCGGTCTTAGATCT
TTCCCATCATGTCTCTGAAGTATAAGGTTCACCA
Found at i:128679 original size:19 final size:19
Alignment explanation
Indices: 128655--128692 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
128645 ATGAATGAAA
128655 AGATTAAAAGTGACCCATT
1 AGATTAAAAGTGACCCATT
128674 AGATTAAAAGTGACCCATT
1 AGATTAAAAGTGACCCATT
128693 GGTCAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
AGATTAAAAGTGACCCATT
Found at i:129294 original size:6 final size:6
Alignment explanation
Indices: 129280--129385 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
129270 CACTTCGACC
* *
129280 TTTCCT TTTCTT TTTCTT TTTCTCT TTT-TT TATTATT TTAT-TAT TTGT-TT
1 TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT T-TTCTT TT-TCT-T TT-TCTT
* * * * *
129330 TTTGTT TTT-TT TTTGTT TTTGTT TTTGTTT TTTCTT CTTTTTT TTTC-T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT-CTT TTTCTT -TTTCTT TTTCTT
129378 TTTCTT TT
1 TTTCTT TT
129386 ATTCATTGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
5 13 0.15
6 48 0.57
7 23 0.27
ACGTcount: A:0.04, C:0.09, G:0.05, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:129300 original size:12 final size:12
Alignment explanation
Indices: 129280--129385 Score: 51
Period size: 13 Copynumber: 8.7 Consensus size: 12
129270 CACTTCGACC
*
129280 TTTCCTTTTCTT
1 TTTCTTTTTCTT
129292 TTTCTTTTTCTCT
1 TTTCTTTTTCT-T
*
129305 TTT-TTTATTATT
1 TTTCTTT-TTCTT
129317 TTAT-TATTTGT-TT
1 TT-TCT-TTT-TCTT
*
129330 TTTGTTTTT-TT
1 TTTCTTTTTCTT
* *
129341 TTTGTTTTTGTT
1 TTTCTTTTTCTT
*
129353 TTTGTTTTTTCTT
1 TTT-CTTTTTCTT
*
129366 CTTTTTTTTTC-T
1 -TTTCTTTTTCTT
129378 TTTCTTTT
1 TTTCTTTT
129386 ATTCATTGAA
Statistics
Matches: 80, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
11 19 0.24
12 26 0.32
13 29 0.36
14 6 0.08
ACGTcount: A:0.04, C:0.09, G:0.05, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:129307 original size:8 final size:7
Alignment explanation
Indices: 129285--129380 Score: 52
Period size: 7 Copynumber: 13.3 Consensus size: 7
129275 CGACCTTTCC
129285 TTTTC-T
1 TTTTCTT
129291 TTTTCTT
1 TTTTCTT
129298 TTTCTCTTT
1 TTT-TC-TT
*
129307 TTTTATT
1 TTTTCTT
*
129314 ATTTTATT
1 -TTTTCTT
* *
129322 ATTTGTT
1 TTTTCTT
*
129329 TTTTGTT
1 TTTTCTT
*
129336 TTTTTTT
1 TTTTCTT
*
129343 TGTTTTTGT
1 T-TTTCT-T
*
129352 TTTTGTT
1 TTTTCTT
129359 TTTTCTT
1 TTTTCTT
*
129366 CTTT-TT
1 TTTTCTT
129372 TTTTCTT
1 TTTTCTT
129379 TT
1 TT
129381 CTTTTATTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
6 10 0.14
7 38 0.51
8 19 0.26
9 7 0.09
ACGTcount: A:0.04, C:0.07, G:0.05, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:129318 original size:11 final size:10
Alignment explanation
Indices: 129304--129388 Score: 55
Period size: 11 Copynumber: 8.0 Consensus size: 10
129294 TCTTTTTCTC
129304 TTTTTTTATT
1 TTTTTTTATT
*
129314 ATTTTATTATT
1 -TTTTTTTATT
*
129325 TGTTTTTTGTT
1 T-TTTTTTATT
129336 TTTTTTT-TGT
1 TTTTTTTAT-T
*
129346 TTTTGTTTTTGT
1 TTTT-TTTAT-T
*
129358 TTTTTCTTCTT
1 TTTTT-TTATT
*
129369 TTTTTTTCTT
1 TTTTTTTATT
*
129379 TTCTTTTATT
1 TTTTTTTATT
129389 CATTGAATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
9 1 0.02
10 25 0.40
11 27 0.43
12 10 0.16
ACGTcount: A:0.06, C:0.05, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:129338 original size:30 final size:30
Alignment explanation
Indices: 129296--129371 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
129286 TTTCTTTTTC
129296 TTTTTCTCTTTTTTTATTATTTTAT-TATTTG
1 TTTTT-TCTTTTTTTATTATTTT-TGTATTTG
* * * *
129327 TTTTTTGTTTTTTTTTTGTTTTTGTTTTTG
1 TTTTTTCTTTTTTTATTATTTTTGTATTTG
129357 TTTTTTCTTCTTTTT
1 TTTTTTCTT-TTTTT
129372 TTTTCTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 1 0.03
30 27 0.71
31 10 0.26
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (30 bp):
TTTTTTCTTTTTTTATTATTTTTGTATTTG
Found at i:129371 original size:23 final size:24
Alignment explanation
Indices: 129323--129373 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
129313 TATTTTATTA
*
129323 TTTGTTTTTTGTTTTTTTTTTGTT
1 TTTGTTTTTTGTTTTTTTTCTGTT
*
129347 TTTG-TTTTTGTTTTTTCTTCTTTT
1 TTTGTTTTTTGTTTTTT-TTCTGTT
129371 TTT
1 TTT
129374 TTCTTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (24 bp):
TTTGTTTTTTGTTTTTTTTCTGTT
Found at i:129374 original size:31 final size:32
Alignment explanation
Indices: 129296--129380 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 32
129286 TTTCTTTTTC
129296 TTTTTC-TCTTTTTTTATTATTTTATTATTTGT
1 TTTTTCTTCTTTTTTT-TTATTTTATTATTTGT
* *
129328 TTTTTGTT-TTTTTTTTGT-TTTTGTT-TTTGT
1 TTTTTCTTCTTTTTTTT-TATTTTATTATTTGT
*
129358 TTTTTCTTCTTTTTTTTTCTTTT
1 TTTTTCTTCTTTTTTTTTATTTT
129381 CTTTTATTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 13 0.28
31 19 0.41
32 13 0.28
33 1 0.02
ACGTcount: A:0.05, C:0.06, G:0.06, T:0.84
Consensus pattern (32 bp):
TTTTTCTTCTTTTTTTTTATTTTATTATTTGT
Found at i:134971 original size:59 final size:59
Alignment explanation
Indices: 134899--135323 Score: 374
Period size: 59 Copynumber: 7.4 Consensus size: 59
134889 TTTTGGACGC
* * * * * * *
134899 TCGAGGGTGAAATGGTAATTTTTGGAAGGCTCGAGGTCAAAAATGAATTTTTTGGACAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGATAAAAAATGGAGTTTTTAGACAT
* * * * *
134958 TTGGGGGTAAAATGGTAATTTTTGGAAGGCTCGGGATTAAAAATGGAGTTTTTAGACAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGATAAAAAATGGAGTTTTTAGACAT
* * *
135017 CCGGGGGT--AAGGGTAATTTTTGGAAGGTTTCGA-ATAAAAAATGGAGTTTTTAGACAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGG-TTCGAGATAAAAAATGGAGTTTTTAGACAT
*
135074 TCGAGGGTAAAATGGTAAATTTTGGAAGGTTCGAGATAAAAAAACT-GAGTTTTTAGACAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGAT-AAAAAA-TGGAGTTTTTAGACAT
* * * * * * * * * * * * * *
135134 CCGGGGGTAAAATGATAATTTTTGAAAGTTTTGGGGTCACAAATGAAATTTTTGGAAAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGATAAAAAATGGAGTTTTTAGACAT
* * *
135193 TTGAGGGTAAAATGGTAA-TTTTGGAAGGTTCAAGAT-AAAAATGGAGATTTTAGACAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGATAAAAAATGGAGTTTTTAGACAT
* * * * *
135250 TCGAGGGTAAAATGGTAA--GTTCG-AGATT----A-AAAAAATGAAGATTTTAGACAT
1 TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGATAAAAAATGGAGTTTTTAGACAT
*
135301 TCGGGGGTAAAATGGTAATTTTT
1 TCGAGGGTAAAATGGTAATTTTT
135324 AAAAGTTTTG
Statistics
Matches: 299, Mismatches: 57, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
51 38 0.13
53 2 0.01
55 4 0.01
56 3 0.01
57 79 0.26
58 21 0.07
59 103 0.34
60 48 0.16
61 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (59 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGATAAAAAATGGAGTTTTTAGACAT
Found at i:135097 original size:116 final size:116
Alignment explanation
Indices: 134912--135259 Score: 398
Period size: 116 Copynumber: 3.0 Consensus size: 116
134902 AGGGTGAAAT
* * *
134912 GGTAATTTTTGGAAGG-CTCGAGGTCAAAAATGAATTTTTTGGACATTTGGGGGTAAAATGGTAA
1 GGTAATTTTTGGAAGGTTTCGA-GTCAAAAATGAAATTTTTGGACATTTGAGGGTAAAATGGTAA
* * *
134976 TTTTTGGAAGGCTCGGGATTAAAAATGGAGTTTTTAGACATCCGGGGGTAAG
65 ATTTTGGAAGGTTCGAGATTAAAAATGGAGTTTTTAGACATCCGGGGGTAAG
* * * * * *
135028 GGTAATTTTTGGAAGGTTTCGAATAAAAAATGGAGTTTTTAGACATTCGAGGGTAAAATGGTAAA
1 GGTAATTTTTGGAAGGTTTCGAGTCAAAAATGAAATTTTTGGACATTTGAGGGTAAAATGGTAAA
* *
135093 TTTTGGAAGGTTCGAGATAAAAAAACT-GAGTTTTTAGACATCCGGGGGTAAAAT
66 TTTTGGAAGGTTCGAGAT-TAAAAA-TGGAGTTTTTAGACATCCGGGGGT--AAG
* * * * * * *
135147 GATAATTTTTGAAAGTTTTGGGGTCACAAATGAAATTTTTGGAAATTTGAGGGTAAAATGGT-AA
1 GGTAATTTTTGGAAGGTTTCGAGTCAAAAATGAAATTTTTGGACATTTGAGGGTAAAATGGTAAA
* * * *
135211 TTTTGGAAGGTTCAAGA-TAAAAATGGAGATTTTAGACATTCGAGGGTAA
66 TTTTGGAAGGTTCGAGATTAAAAATGGAGTTTTTAGACATCCGGGGGTAA
135260 AATGGTAAGT
Statistics
Matches: 195, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
114 2 0.01
115 1 0.01
116 91 0.47
117 31 0.16
118 19 0.10
119 51 0.26
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (116 bp):
GGTAATTTTTGGAAGGTTTCGAGTCAAAAATGAAATTTTTGGACATTTGAGGGTAAAATGGTAAA
TTTTGGAAGGTTCGAGATTAAAAATGGAGTTTTTAGACATCCGGGGGTAAG
Found at i:135214 original size:28 final size:28
Alignment explanation
Indices: 135138--135267 Score: 77
Period size: 29 Copynumber: 4.5 Consensus size: 28
135128 AGACATCCGG
* *
135138 GGGTAAAATGATAATTTTTGAAAGTTTTG-
1 GGGTAAAATGGTAATTTTGGAAA--TTTGA
*
135167 GGGTCACAAAT-GAAATTTTTGGAAATTTGA
1 GGGT-A-AAATGGTAA-TTTTGGAAATTTGA
** *
135197 GGGTAAAATGGTAATTTTGGAAGGTTCA
1 GGGTAAAATGGTAATTTTGGAAATTTGA
* * * * *
135225 AGATAAAAATGG-AGATTTTAGACATTCGA
1 GGGT-AAAATGGTA-ATTTTGGAAATTTGA
135254 GGGTAAAATGGTAA
1 GGGTAAAATGGTAA
135268 GTTCGAGATT
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
28 26 0.34
29 31 0.41
30 7 0.09
31 12 0.16
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTGGAAATTTGA
Found at i:135332 original size:167 final size:170
Alignment explanation
Indices: 135028--135379 Score: 450
Period size: 167 Copynumber: 2.0 Consensus size: 170
135018 CGGGGGTAAG
* *
135028 GGTAATTTTTGGAAGGTTTCGAATAAAAAATGGAGTTTTTAGACATTCGAGGGTAAAATGGTAAA
1 GGTAA-TTTTGGAAGGTTTCAAATAAAAAATGGAGATTTTAGACATTCGAGGGTAAAATGG----
* *
135093 TTTTGGAAGGTTCGAGATAAAAAAACTGAGTTTTTAGACATCCGGGGGTAAAATGATAATTTTTG
61 --TT-GAAGGTTCGAGATAAAAAAACTGAGATTTTAGACATCCGGGGGTAAAATGATAATTTTTA
* * *
135158 AAAGTTTTGGGGTCACAAATGAAATTTTTGGAAATTTGA-GGGTAAAAT
123 AAAGTTTTGGGGTCAAAAATGAAA-TTTTGGAAAGTTCAGGGGTAAAAT
135206 GGTAATTTTGGAAGG-TTCAAGAT-AAAAATGGAGATTTTAGACATTCGAGGGTAAAATGG-T-A
1 GGTAATTTTGGAAGGTTTCAA-ATAAAAAATGGAGATTTTAGACATTCGAGGGTAAAATGGTTGA
* *
135267 A-GTTCGAGATTAAAAAAA-TGAAGATTTTAGACATTCGGGGGTAAAATGGTAATTTTTAAAAGT
65 AGGTTCGAGA-TAAAAAAACTG-AGATTTTAGACATCCGGGGGTAAAATGATAATTTTTAAAAGT
*
135330 TTTGGGGTCAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAAT
128 TTTGGGGTCAAAAATGAAATTTTGGAAAGTTCAGGGGTAAAAT
135373 -GTAATTT
1 GGTAATTT
135380 ATGAAAAGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
166 29 0.18
167 74 0.46
169 1 0.01
176 39 0.24
177 12 0.08
178 5 0.03
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (170 bp):
GGTAATTTTGGAAGGTTTCAAATAAAAAATGGAGATTTTAGACATTCGAGGGTAAAATGGTTGAA
GGTTCGAGATAAAAAAACTGAGATTTTAGACATCCGGGGGTAAAATGATAATTTTTAAAAGTTTT
GGGGTCAAAAATGAAATTTTGGAAAGTTCAGGGGTAAAAT
Found at i:135336 original size:29 final size:30
Alignment explanation
Indices: 135304--135512 Score: 116
Period size: 30 Copynumber: 7.1 Consensus size: 30
135294 TAGACATTCG
*
135304 GGGGT-AAAATGGTAATTTTTAAAAGTTTT
1 GGGGTAAAAATGGTAATTTTTAAAAGTTTA
** *
135333 GGGGTCAAAAATGG-AATTTTGGAAAGTTCA
1 GGGGT-AAAAATGGTAATTTTTAAAAGTTTA
* *
135363 GGGGT-AAAAT-GTAATTTATGAAAAGATT-
1 GGGGTAAAAATGGTAATTT-TTAAAAGTTTA
135391 -GGGTAAAAAATGG-AA-TTTTAGAAAGTTTA
1 GGGGT-AAAAATGGTAATTTTTA-AAAGTTTA
* * *
135420 AGGGTAAAAAT-GTAATTTTTGGAAAA-ATCA
1 GGGGTAAAAATGGTAATTTTT--AAAAGTTTA
* * ** * *
135450 GGGTTAAAAATGGAAATTTGGAGAAGTTTG
1 GGGGTAAAAATGGTAATTTTTAAAAGTTTA
* * *
135480 GGGGTCAAAAT-ATAATTTTTAGACAGTTTA
1 GGGGTAAAAATGGTAATTTTTA-AAAGTTTA
135510 GGG
1 GGG
135513 ACCTTCAAGG
Statistics
Matches: 134, Mismatches: 29, Indels: 33
0.68 0.15 0.17
Matches are distributed among these distances:
27 7 0.05
28 19 0.14
29 36 0.27
30 55 0.41
31 16 0.12
32 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.32
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTAAAAGTTTA
Found at i:135359 original size:30 final size:29
Alignment explanation
Indices: 135304--135490 Score: 139
Period size: 30 Copynumber: 6.4 Consensus size: 29
135294 TAGACATTCG
** *
135304 GGGGT-AAAATGGTAATTTTTAAAAGTTTT
1 GGGGTAAAAATGG-AATTTTGGAAAGTTTA
*
135333 GGGGTCAAAAATGGAATTTTGGAAAGTTCA
1 GGGGT-AAAAATGGAATTTTGGAAAGTTTA
* * *
135363 GGGGT-AAAATGTAATTTATGAAAAGATT-
1 GGGGTAAAAATGGAATTT-TGGAAAGTTTA
*
135391 -GGGTAAAAAATGGAATTTTAGAAAGTTTA
1 GGGGT-AAAAATGGAATTTTGGAAAGTTTA
* * ** *
135420 AGGGTAAAAATGTAATTTTTGGAAAAATCA
1 GGGGTAAAAATGGAA-TTTTGGAAAGTTTA
* * *
135450 GGGTTAAAAATGGAAATTTGGAGAAGTTTG
1 GGGGTAAAAATGGAATTTTGGA-AAGTTTA
*
135480 GGGGTCAAAAT
1 GGGGTAAAAAT
135491 ATAATTTTTA
Statistics
Matches: 122, Mismatches: 27, Indels: 17
0.73 0.16 0.10
Matches are distributed among these distances:
27 4 0.03
28 18 0.15
29 38 0.31
30 55 0.45
31 7 0.06
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTTA
Found at i:135426 original size:167 final size:166
Alignment explanation
Indices: 135102--135428 Score: 414
Period size: 167 Copynumber: 2.0 Consensus size: 166
135092 ATTTTGGAAG
* *
135102 GTTCGAGATAAAAAAACTGAGTTTTTAGACATCCGGGGGTAAAATGATAATTTTTGAAAGTTTTG
1 GTTCGAGATAAAAAAACTGAGATTTTAGACATCCGGGGGTAAAATGATAATTTTTAAAAGTTTTG
* * * * *
135167 GGGTCACAAATGAAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTGGAAGGTTCAAGATAAA
66 GGGTCAAAAATGAAATTTTTGGAAAGTTCAGGGTAAAATGGTAATTTTGAAAGATTCAAGATAAA
* *
135232 AATGGAGATTTTAGACATTCGAGGGTAAAATGGTAA
131 AATGGAGATTTTAGAAATTCAAGGGTAAAATGGTAA
* *
135268 GTTCGAGATTAAAAAAA-TGAAGATTTTAGACATTCGGGGGTAAAATGGTAATTTTTAAAAGTTT
1 GTTCGAGA-TAAAAAAACTG-AGATTTTAGACATCCGGGGGTAAAATGATAATTTTTAAAAGTTT
* *
135332 TGGGGTCAAAAATGGAA-TTTTGGAAAGTTCAGGGGTAAAAT-GTAATTTATGAAAAGATT--GG
64 TGGGGTCAAAAATGAAATTTTTGGAAAGTTCA-GGGTAAAATGGTAATTT-TG-AAAGATTCAAG
* *
135393 GTAAAAAATGGA-ATTTTAGAAAGTTTAAGGGTAAAA
126 AT-AAAAATGGAGATTTTAGAAA-TTCAAGGGTAAAA
135429 ATGTAATTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
166 40 0.29
167 94 0.68
168 5 0.04
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (166 bp):
GTTCGAGATAAAAAAACTGAGATTTTAGACATCCGGGGGTAAAATGATAATTTTTAAAAGTTTTG
GGGTCAAAAATGAAATTTTTGGAAAGTTCAGGGTAAAATGGTAATTTTGAAAGATTCAAGATAAA
AATGGAGATTTTAGAAATTCAAGGGTAAAATGGTAA
Found at i:136630 original size:15 final size:16
Alignment explanation
Indices: 136612--136647 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
136602 TACTATTAAC
*
136612 ATTATTACTAATA-TT
1 ATTATTAATAATATTT
136627 ATTATTAATAATATTT
1 ATTATTAATAATATTT
136643 ATTAT
1 ATTAT
136648 ATTATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTAATAATATTT
Found at i:136650 original size:21 final size:20
Alignment explanation
Indices: 136626--136670 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
136616 TTACTAATAT
*
136626 TATTATTAATAATATTTATTA
1 TATTATAAATAATA-TTATTA
136647 TATTATAAATAATATTATTA
1 TATTATAAATAATATTATTA
136667 -ATTA
1 TATTA
136671 CTATTAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
21 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTATAAATAATATTATTA
Found at i:137334 original size:6 final size:6
Alignment explanation
Indices: 137319--137408 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
137309 TGTAATTGAT
* * * *
137319 TTTAAA TTTAAG TTTAAA ATT--A TTCCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA
* * * *
137365 TTTAAA -ATGAA TTTAAA TTTAAA TTTAAA -GTAAA TTTAAT TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
137409 GAAATAAATC
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
4 2 0.03
5 11 0.17
6 47 0.75
7 3 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:137361 original size:11 final size:11
Alignment explanation
Indices: 137361--137403 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
137351 AAACTAAATT
137361 TAAATTTAAAA
1 TAAATTTAAAA
* *
137372 TGAATTTAAATT
1 TAAATTTAAA-A
*
137384 TAAATTTAAAG
1 TAAATTTAAAA
137395 TAAATTTAA
1 TAAATTTAA
137404 TTTTAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:137381 original size:23 final size:23
Alignment explanation
Indices: 137355--137408 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
137345 AAATTTAAAC
*
137355 TAAATTTAAATTTAAAATGAATT
1 TAAATTTAAATTTAAAATAAATT
*
137378 TAAATTTAAATTTAAAGTAAATT
1 TAAATTTAAATTTAAAATAAATT
*
137401 TAATTTTA
1 TAAATTTA
137409 GAAATAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAATTTAAATTTAAAATAAATT
Done.