Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold582
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: 178803
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:3000 original size:25 final size:25
Alignment explanation
Indices: 2963--3035 Score: 67
Period size: 29 Copynumber: 2.7 Consensus size: 25
2953 GCTTTGTTTC
2963 CGTTT-TTTCCTTTTTTTTGCTATTT
1 CGTTTCTTT-CTTTTTTTTGCTATTT
*
2988 CGTTTCTTTCTTTGTTTTTTTTTCTATTT
1 CGTTTCTTTC----TTTTTTTTGCTATTT
*
3017 CGATTCTCTTCTTTTTTTT
1 CGTTTCT-TTCTTTTTTTT
3036 CTTCCTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
25 6 0.15
26 11 0.28
29 20 0.50
30 3 0.08
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.73
Consensus pattern (25 bp):
CGTTTCTTTCTTTTTTTTGCTATTT
Found at i:3014 original size:29 final size:29
Alignment explanation
Indices: 2973--3035 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
2963 CGTTTTTTCC
*
2973 TTTTTTTTGCTATTTCGTTTCT-TTCTTT
1 TTTTTTTTGCTATTTCGATTCTCTTCTTT
*
3001 GTTTTTTTTTCTATTTCGATTCTCTTCTTT
1 -TTTTTTTTGCTATTTCGATTCTCTTCTTT
3031 TTTTT
1 TTTTT
3036 CTTCCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.05, C:0.14, G:0.06, T:0.75
Consensus pattern (29 bp):
TTTTTTTTGCTATTTCGATTCTCTTCTTT
Found at i:3068 original size:19 final size:20
Alignment explanation
Indices: 3040--3079 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3030 TTTTTTCTTC
* *
3040 CTTTTTTTTG-TTGTTTTTT
1 CTTTTCTTTGATTCTTTTTT
3059 CTTTTCTTTGATTCTTTTTT
1 CTTTTCTTTGATTCTTTTTT
3079 C
1 C
3080 CCCTTCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.03, C:0.12, G:0.07, T:0.78
Consensus pattern (20 bp):
CTTTTCTTTGATTCTTTTTT
Found at i:3962 original size:19 final size:17
Alignment explanation
Indices: 3938--4000 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
3928 AAACAGAAAA
3938 TGTATCGATACATAAGGGT
1 TGTATCGATACATAA--GT
3957 TGTATCGAT--ATAA--
1 TGTATCGATACATAAGT
3970 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG--T
3989 TGTATCGATACA
1 TGTATCGATACA
4001 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 21 0.55
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (17 bp):
TGTATCGATACATAAGT
Found at i:3977 original size:32 final size:32
Alignment explanation
Indices: 3936--4008 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
3926 ACAAACAGAA
*
3936 AATGTATCGATACATAAGGGTTGTATCGATAT
1 AATGTATCGATACATAAGGGTTGTATCGATAC
**
3968 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGGGTTGTATCGATAC
4000 AATGTATCG
1 AATGTATCG
4009 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGGGTTGTATCGATAC
Found at i:4051 original size:21 final size:21
Alignment explanation
Indices: 4025--4065 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4015 AGCTACTGCC
4025 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4046 AAGGAAATGTATCGATACAT
1 AAGGAAATGTATCGATACAT
4066 CGATCTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:6467 original size:52 final size:52
Alignment explanation
Indices: 6400--6533 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 52
6390 TTAAGTTTCT
* *
6400 CAATTGTT-CATAATCGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
1 CAATT-TTCCATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
6451 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* *
6504 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGAGGATACTCCAACC
6534 TCATTATTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.03
51 6 0.09
52 47 0.67
53 15 0.21
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (52 bp):
CAATTTTCCATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:6639 original size:79 final size:78
Alignment explanation
Indices: 6544--6799 Score: 296
Period size: 79 Copynumber: 3.2 Consensus size: 78
6534 TCATTATTTC
** * * * *
6544 ATCGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTTCAAAAAC
* *
6609 ATTAATTTCTCATA
65 ATCAATTTTTCATA
* * *
6623 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTTCAAAAAC
6688 ATCAATTTTTCATA
65 ATCAATTTTTCATA
* * ** * * *
6702 ATCAGGAATACTTTAATCCCGTTATTTTCAAAGGGACACTCCAACCCCGATTTATTTCAAAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTTC-AAAAAC
* *
6767 ACCAATTTTTCAGA
65 ATCAATTTTTCATA
*
6781 ATCGAGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
6800 AATTAATCAT
Statistics
Matches: 148, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
78 9 0.06
79 139 0.94
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTTCAAAAACA
TCAATTTTTCATA
Found at i:6658 original size:107 final size:107
Alignment explanation
Indices: 6468--6670 Score: 266
Period size: 107 Copynumber: 1.9 Consensus size: 107
6458 CCTTTAATCG
* * *
6468 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
*
6533 CTCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAA
66 CCCATTATTTCA-CGGGGATACTCCAACCCCGTTACCTCCGAA
* * ** * *
6576 GGGATACTCCAACCCCGGCTTTATTTCC-AAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
*
6640 CCCGTTATTTTCGA-GGGGATACTCCAACCCC
66 CCCATTA-TTTC-ACGGGGATACTCCAACCCC
6671 AGTTTTATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
107 52 0.63
108 29 0.35
109 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (107 bp):
GGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
CCCATTATTTCACGGGGATACTCCAACCCCGTTACCTCCGAA
Found at i:6948 original size:76 final size:79
Alignment explanation
Indices: 6808--6962 Score: 237
Period size: 76 Copynumber: 2.0 Consensus size: 79
6798 CCAATTAATC
* *
6808 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCTTAAAAT
1 ATCGGGGATACTCCAACCCCGCTATTTCC-AGGGGATACTCCAACCCCGGCTTTATTCTCAAAAT
*
6873 ATT-GATTTCTCGTA
65 ATTAAATTTCTCGTA
6887 ATCGGGGATACTCCAACCCCGCTATTT-C-GGGGATACTCCAACCCCGGCTTTA-TCTCCAAAAT
1 ATCGGGGATACTCCAACCCCGCTATTTCCAGGGGATACTCCAACCCCGGCTTTATTCT-CAAAAT
6949 ATTAAATTTCTCGT
65 ATTAAATTTCTCGT
6963 CAGGGGATGT
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
75 3 0.04
76 32 0.45
77 9 0.13
78 1 0.01
79 26 0.37
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGCTATTTCCAGGGGATACTCCAACCCCGGCTTTATTCTCAAAATA
TTAAATTTCTCGTA
Found at i:12740 original size:385 final size:385
Alignment explanation
Indices: 12030--12802 Score: 1528
Period size: 385 Copynumber: 2.0 Consensus size: 385
12020 AAAAAAACTT
12030 AAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATC
1 AAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATC
12095 GGTTTTGATGCAAACAAGCATGATGATCATGATGAACAACATTCATGGAGGTGTTGAACATGTCA
66 GGTTTTGATGCAAACAAGCATGATGATCATGATGAACAACATTCATGGAGGTGTTGAACATGTCA
*
12160 TAAATGCATGAAGCATAGCTTAAAATGCATGAATCATGGGTTGTTAACATGATGGAGATGAATAT
131 TAAATGCATGAAGCATAGCTTAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATAT
12225 GGCATTTTAGGTACACAAATGACTTTAAATCATGAAAATCATCACAATAATCCTAAAACTACCAC
196 GGCATTTTAGGTACACAAATGACTTTAAATCATGAAAATCATCACAATAATCCTAAAACTACCAC
*
12290 ATTCAAAGCCACAATCATGTATTATGATCCTAGGAAGGTCATGGAAACATGTTAGGATCACTAAA
261 ATTCAAAGCCACAATCATGTATTATGATCCTAGGAAGGTCATGGAAACATGCTAGGATCACTAAA
12355 ATGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGGGCAGAAAATATACCAACAC
326 ATGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGGGCAGAAAATATACCAACAC
12415 AAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATC
1 AAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATC
12480 GGTTTTGATGCAAACAAGCATGATGATCATGATGAACAACATTCATGGAGGTGTTGAACATGTCA
66 GGTTTTGATGCAAACAAGCATGATGATCATGATGAACAACATTCATGGAGGTGTTGAACATGTCA
12545 TAAATGCATGAAGCATAGCTTAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATAT
131 TAAATGCATGAAGCATAGCTTAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATAT
12610 GGCATTTTAGGTACACAAATGACTTTAAATCATGAAAATCATCACAATAATCCTAAAACTACCAC
196 GGCATTTTAGGTACACAAATGACTTTAAATCATGAAAATCATCACAATAATCCTAAAACTACCAC
12675 ATTCAAAGCCACAATCATGTATTATGATCCTAGGAAGGTCATGGAAACATGCTAGGATCACTAAA
261 ATTCAAAGCCACAATCATGTATTATGATCCTAGGAAGGTCATGGAAACATGCTAGGATCACTAAA
12740 ATGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGGGCAGAAAATATACCAACAC
326 ATGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGGGCAGAAAATATACCAACAC
12800 AAA
1 AAA
12803 GAACAATGCT
Statistics
Matches: 386, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
385 386 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (385 bp):
AAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGAGGTGTTTGAAAATC
GGTTTTGATGCAAACAAGCATGATGATCATGATGAACAACATTCATGGAGGTGTTGAACATGTCA
TAAATGCATGAAGCATAGCTTAAAATGCATGAATCATGGGCTGTTAACATGATGGAGATGAATAT
GGCATTTTAGGTACACAAATGACTTTAAATCATGAAAATCATCACAATAATCCTAAAACTACCAC
ATTCAAAGCCACAATCATGTATTATGATCCTAGGAAGGTCATGGAAACATGCTAGGATCACTAAA
ATGATGAAGAACACATAAACAGAAAAGGAAAGTGTAAAAGGGCAGAAAATATACCAACAC
Found at i:13499 original size:52 final size:51
Alignment explanation
Indices: 13421--13569 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
13411 CGAAATATGA
13421 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
13473 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
13525 AAATTTGCCTGCATGTATTGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
13570 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:13576 original size:13 final size:13
Alignment explanation
Indices: 13558--13582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13548 CAAAGATCAG
13558 TGTATCGATACAA
1 TGTATCGATACAA
13571 TGTATCGATACA
1 TGTATCGATACA
13583 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13660 original size:33 final size:33
Alignment explanation
Indices: 13623--13689 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
13613 AGTAGCTTAA
13623 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
13656 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
13689 A
1 A
13690 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:13663 original size:13 final size:13
Alignment explanation
Indices: 13645--13669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13635 CAAAAAAATA
13645 TGTATCGATACAT
1 TGTATCGATACAT
13658 TGTATCGATACA
1 TGTATCGATACA
13670 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:23378 original size:10 final size:10
Alignment explanation
Indices: 23360--23416 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
23350 TTCTAAAAAA
23360 AAAACAAAAGC
1 AAAA-AAAAGC
23371 AAAAAAAAGAAC
1 AAAAAAAAG--C
*
23383 AAAAAAAAAC
1 AAAAAAAAGC
*
23393 AAAAAAAAAC
1 AAAAAAAAGC
*
23403 AAAACAAAG-
1 AAAAAAAAGC
23412 AAAAA
1 AAAAA
23417 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.10
10 23 0.57
11 4 0.10
12 9 0.22
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGC
Found at i:23386 original size:28 final size:25
Alignment explanation
Indices: 23355--23416 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 25
23345 TTATCTTCTA
23355 AAAAAAAAACAAAAGCAAAAAAAAGAAC
1 AAAAAAAAACAAAA--AAAAAAAA-AAC
*
23383 AAAAAAAAACAAAAAAAAACAAAAC
1 AAAAAAAAACAAAAAAAAAAAAAAC
*
23408 AAAGAAAAA
1 AAAAAAAAA
23417 GAGAGAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 11 0.34
26 7 0.22
28 14 0.44
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (25 bp):
AAAAAAAAACAAAAAAAAAAAAAAC
Found at i:23406 original size:32 final size:31
Alignment explanation
Indices: 23354--23413 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
23344 CTTATCTTCT
* *
23354 AAAAAAAAAACAAAAGCAAAAAAAAGAACAA
1 AAAAAAAAAAAAAAAACAAAAAAAAGAACAA
*
23385 AAAAAAACAAAAAAAAACAAAACAAAGAA
1 AAAAAAA-AAAAAAAAACAAAAAAAAGAA
23414 AAAGAGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAAAAAAACAAAAAAAAGAACAA
Found at i:23415 original size:15 final size:14
Alignment explanation
Indices: 23354--23416 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 14
23344 CTTATCTTCT
23354 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
* *
23368 AGCAAAAAAAA-GAA
1 A-AAAAAAAAACAAA
*
23382 CAAAAAAAAACAAA
1 AAAAAAAAAACAAA
23396 AAAAAACAAAACAAA
1 AAAAAA-AAAACAAA
*
23411 GAAAAA
1 AAAAAA
23417 GAGAGAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 8 0.21
14 10 0.26
15 21 0.54
ACGTcount: A:0.86, C:0.10, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:24554 original size:55 final size:58
Alignment explanation
Indices: 24493--24626 Score: 177
Period size: 61 Copynumber: 2.3 Consensus size: 58
24483 TTCGCCCTTT
**
24493 AGTCCTCAAAGAGCAGGATGCC-TTT-C-AAAGCCCACACAAGTTGGTGGCACCTT-TT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
*
24548 TGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCC---TAAAGCCCACACAAGTTGGTGGCACTTCCC
24609 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
24627 CGCTCCCTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
55 21 0.31
56 3 0.04
57 1 0.01
60 3 0.04
61 40 0.59
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:24638 original size:61 final size:61
Alignment explanation
Indices: 24513--24640 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 61
24503 GAGCAGGATG
*** * **
24513 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCCT
*
24574 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACG-CTCCCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGACGCCT-CCT
24635 CCTTTC
1 CCTTTC
24641 GCCTTTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
60 5 0.09
61 52 0.91
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (61 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCCT
Found at i:24659 original size:100 final size:94
Alignment explanation
Indices: 24542--24723 Score: 240
Period size: 94 Copynumber: 1.9 Consensus size: 94
24532 GTTGGTGGCA
*
24542 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CCTTTTTGTCCTCAAAGAGCAGGATG------CCTTTTAAAGCCCACACAAGCTGGTGGCACCTT
24606 CCCAGTCCTCAAAGAGCAGGACGCTCCCTCCTTTCG
60 -CCAGTCCTCAAAGAGCAGGACGCTCCCTCCTTTCG
* * **
24642 CCTTTTTGTCCTTAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTC
1 CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCCAGTC
*
24707 TTCAAAGAGCAGGACGC
66 CTCAAAGAGCAGGACGC
24724 CTTCTCCTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
94 48 0.64
95 3 0.04
100 24 0.32
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
CCTTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCCAGTC
CTCAAAGAGCAGGACGCTCCCTCCTTTCG
Found at i:24678 original size:155 final size:155
Alignment explanation
Indices: 24395--24784 Score: 636
Period size: 155 Copynumber: 2.5 Consensus size: 155
24385 CACTTTTCAA
* *
24395 TCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAATCCCACACAAGTTGGTGGCACTTCCCAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
** *
24460 CAAAGAGCAGGACGCTCTTTTCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
66 CAAAGAGCAGGACGCTCCCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
* *
24525 CACACAAGTTGGTGGCACCTTTTTG
131 CACACAAGCTGGTGGCACCTTTTAG
24550 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
* * * * *
24615 CAAAGAGCAGGACGCTCCCTCCTTTCGCCTTTTTGTCCTTAAAGAGTAGGATGCCTTTTAAAGCC
66 CAAAGAGCAGGACGCTCCCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
24680 CACACAAGCTGGTGGCACCTTTTAG
131 CACACAAGCTGGTGGCACCTTTTAG
* * * *
24705 TCTTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
24770 CAAAGAGCAGGACGC
66 CAAAGAGCAGGACGC
24785 CTTTCAAAGC
Statistics
Matches: 219, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
155 219 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (155 bp):
TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCT
CAAAGAGCAGGACGCTCCCTCCTTTCGCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCC
CACACAAGCTGGTGGCACCTTTTAG
Found at i:24726 original size:55 final size:56
Alignment explanation
Indices: 24642--24899 Score: 254
Period size: 55 Copynumber: 4.4 Consensus size: 56
24632 CCTCCTTTCG
* * * * *
24642 CCTTTTTGTCCTTAAAGAGTAGGATG-CCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
24697 CCTTTTAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACG----C-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
24758 -CTTCCTAGTCCTCAAAGAGCAGGACG-CCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTT-TTAGTCCTCAAAGAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
24813 CCCTCTAGTCCTCAAAGACCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC-----CTTTT-AAAGCCCACACAAGTTGGTGGCA
24875 -CTTTGTAGTCCTCAAAGAGCAGGAC
1 CCTTT-TAGTCCTCAAAGAGCAGGAC
24900 TCACTTTATT
Statistics
Matches: 168, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
55 68 0.40
56 3 0.02
60 3 0.02
61 54 0.32
62 40 0.24
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (56 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:24743 original size:61 final size:59
Alignment explanation
Indices: 24668--24899 Score: 285
Period size: 61 Copynumber: 3.9 Consensus size: 59
24658 GAGTAGGATG
* * *
24668 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACGCCTT-T
24729 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
24789 -C----AAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGACCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACGCC-TTT
* *
24845 TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTGTAGTCCTCAAAGAGCAGGAC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTCTAGTCCTCAAAGAGCAGGAC
24900 TCACTTTATT
Statistics
Matches: 149, Mismatches: 12, Indels: 19
0.83 0.07 0.11
Matches are distributed among these distances:
55 44 0.30
56 5 0.03
57 1 0.01
59 1 0.01
60 4 0.03
61 53 0.36
62 41 0.28
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:24938 original size:42 final size:43
Alignment explanation
Indices: 24882--25045 Score: 178
Period size: 42 Copynumber: 3.8 Consensus size: 43
24872 GCACTTTGTA
24882 GTCCTCAAAGAGCAGGACTCACTTT-ATTTTCCTCTTTCT-TTT
1 GTCCTCAAAGAGCAGGACTCA-TTTCATTTTCCTCTTTCTCTTT
* *
24924 GTCCTCAAAGAGCAGGACGCATTTCGTTTTCCT-TTTCTCCTTT
1 GTCCTCAAAGAGCAGGACTCATTTCATTTTCCTCTTTCT-CTTT
*
24967 GTCCTCAAAGAGCTGGACGTTC-TTT-A-TTTCCTTCTTTTCTCTTCT
1 GTCCTCAAAGAGCAGGAC--TCATTTCATTTTCC-TC-TTTCTCTT-T
*
25012 AGTCCTCAAAGAGCAGGACACATTTCATTTTCCT
1 -GTCCTCAAAGAGCAGGACTCATTTCATTTTCCT
25046 TTTTTCCTTT
Statistics
Matches: 102, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
41 8 0.08
42 32 0.31
43 21 0.21
44 7 0.07
45 10 0.10
46 19 0.19
47 5 0.05
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACTCATTTCATTTTCCTCTTTCTCTTT
Found at i:25043 original size:89 final size:85
Alignment explanation
Indices: 24882--25061 Score: 238
Period size: 89 Copynumber: 2.1 Consensus size: 85
24872 GCACTTTGTA
*
24882 GTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGCATT
1 GTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACACATT
*
24947 TCGTTTTCCTTTTCTCCTTT
66 TCATTTTCCTTTTCTCCTTT
* *
24967 GTCCTCAAAGAGCTGGACGT-TCTTTA-TTTCCTTCTTTTCTCTTCTAGTCCTCAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGAC-TCACTTTATTTTCC-TC-TTTCT-TT-T-GTCCTCAAAGAGCAGGA
*
25030 CACATTTCATTTTCCTTTTTTCCTTT
60 CACATTTCATTTTCCTTTTCTCCTTT
*
25056 TTCCTC
1 GTCCTC
25062 TAAAAATGGG
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
84 5 0.06
85 24 0.29
86 6 0.07
87 2 0.02
88 1 0.01
89 45 0.54
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (85 bp):
GTCCTCAAAGAGCAGGACTCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACACATT
TCATTTTCCTTTTCTCCTTT
Found at i:25137 original size:42 final size:40
Alignment explanation
Indices: 25079--25185 Score: 108
Period size: 42 Copynumber: 2.6 Consensus size: 40
25069 GGGACATACT
* *
25079 CTTTTTCACTTTGTCCTCAAGAAGTAAGACACT-TTCCTTTC
1 CTTTTTC-CTTCGTCCTCAAGAAGTAAGAC-CTATTCCATTC
* * *
25120 CTTTTCTTCCTTCGTCCTCAAGGAGCAAGACCTATTTCATTC
1 C-TTT-TTCCTTCGTCCTCAAGAAGTAAGACCTATTCCATTC
* *
25162 CTTTTTCCTTTGTCCTCAAAAAGT
1 CTTTTTCCTTCGTCCTCAAGAAGT
25186 GGGACACCCC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
40 16 0.30
41 6 0.11
42 29 0.54
43 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (40 bp):
CTTTTTCCTTCGTCCTCAAGAAGTAAGACCTATTCCATTC
Found at i:25824 original size:19 final size:19
Alignment explanation
Indices: 25800--25913 Score: 117
Period size: 19 Copynumber: 6.6 Consensus size: 19
25790 AAACAGAAAA
*
25800 TGTATCAATACATAAGGGT
1 TGTATCGATACATAAGGGT
25819 TGTATCGATAC--AA----
1 TGTATCGATACATAAGGGT
25832 TGTATCGATACATAAGGGT
1 TGTATCGATACATAAGGGT
25851 TGTATCGATAC--AA----
1 TGTATCGATACATAAGGGT
25864 TGTATCGATACATAAGGGT
1 TGTATCGATACATAAGGGT
**
25883 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGGGT
25902 TGTATCGATACA
1 TGTATCGATACA
25914 ATGTATCGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 24
0.75 0.03 0.22
Matches are distributed among these distances:
13 22 0.28
15 4 0.05
17 4 0.05
19 50 0.62
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATAAGGGT
Found at i:25837 original size:13 final size:13
Alignment explanation
Indices: 25819--25875 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
25809 ACATAAGGGT
25819 TGTATCGATACAA
1 TGTATCGATACAA
25832 TGTATCGATACATAA
1 TGTATCGATAC--AA
25847 GGGTTGTATCGATACAA
1 ----TGTATCGATACAA
25864 TGTATCGATACA
1 TGTATCGATACA
25876 TAAGGGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25843 original size:32 final size:32
Alignment explanation
Indices: 25798--25894 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
25788 ACAAACAGAA
*
25798 AATGTATCAATACATAAGGGTTGTATCGATAC
1 AATGTATCGATACATAAGGGTTGTATCGATAC
25830 AATGTATCGATACATAAGGGTTGTATCGATAC
1 AATGTATCGATACATAAGGGTTGTATCGATAC
25862 AATGTATCGATACATAAGGGTTGTATCGATAC
1 AATGTATCGATACATAAGGGTTGTATCGATAC
25894 A
1 A
25895 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (32 bp):
AATGTATCGATACATAAGGGTTGTATCGATAC
Found at i:25964 original size:21 final size:21
Alignment explanation
Indices: 25938--25979 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25928 AGCTACTGCC
25938 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
25959 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
25980 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:25984 original size:13 final size:13
Alignment explanation
Indices: 25966--25991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25956 ATTAAGGAAA
25966 TGTATCGATACAT
1 TGTATCGATACAT
25979 TGTATCGATACAT
1 TGTATCGATACAT
25992 CGATCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27393 original size:13 final size:13
Alignment explanation
Indices: 27375--27400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27365 TACAGCAAGT
27375 ATGTATCGATACA
1 ATGTATCGATACA
27388 ATGTATCGATACA
1 ATGTATCGATACA
27401 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29641 original size:21 final size:21
Alignment explanation
Indices: 29608--29652 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29598 TTGCAAGTTG
*
29608 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
29630 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
29650 AAA
1 AAA
29653 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:31476 original size:15 final size:15
Alignment explanation
Indices: 31456--31486 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31446 TAAAAATGTC
*
31456 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
31471 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
31486 C
1 C
31487 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:36039 original size:20 final size:21
Alignment explanation
Indices: 36016--36068 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
36006 ACAATTCAAA
** *
36016 GTATCGATACATGTTACA-AT
1 GTATCGATACATGAAAAAGAT
36036 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
36057 GTATCGATACAT
1 GTATCGATACAT
36069 TTCTTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:36125 original size:13 final size:13
Alignment explanation
Indices: 36107--36132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36097 TACAGCAAGT
36107 ATGTATCGATACA
1 ATGTATCGATACA
36120 ATGTATCGATACA
1 ATGTATCGATACA
36133 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:38355 original size:52 final size:52
Alignment explanation
Indices: 38258--38369 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 52
38248 TGTTCATAAT
* * ** *
38258 CTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
1 CTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCTACAATCGAGGATA
* *
38310 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-ACAATCGAGGATA
1 CTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCTACAATCGAGGATA
38362 CTCCAACC
1 CTCCAACC
38370 TCATTATTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 36 0.71
53 15 0.29
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.31
Consensus pattern (52 bp):
CTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCTACAATCGAGGATA
Found at i:38475 original size:79 final size:79
Alignment explanation
Indices: 38380--38641 Score: 308
Period size: 79 Copynumber: 3.3 Consensus size: 79
38370 TCATTATTTC
** * *
38380 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
38445 ATTAATTTGTCATA
66 ATCAATTTGTCATA
* *
38459 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
38524 ATCAATTTTTCATA
66 ATCAATTTGTCATA
* * ** ** * * *
38538 ATCAGGAATACTTTAATTCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCAAAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTC-TAAAA
* * * *
38603 CACCAATTTTTTAGA
65 CATCAATTTGTCATA
* *
38618 ATCGTGGATACTCCAATCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
38642 ATCATCGCGG
Statistics
Matches: 154, Mismatches: 28, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 120 0.78
80 34 0.22
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ATCAATTTGTCATA
Found at i:38494 original size:107 final size:107
Alignment explanation
Indices: 38303--38504 Score: 255
Period size: 107 Copynumber: 1.9 Consensus size: 107
38293 TCCTTTAATC
* * *
38303 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTGTCACAATCGAGGATACTCCAA
*
38368 CCTCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCATTATTTCA-CGGGGATACTCCAACCCCGTTACCTCCGA
* * * ** * *
38411 GGGGATACTCCAACCCCGGCTTTATTT-CTAAAATATTAATTTGTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTGTCACAATCGAGGATACTCCAA
*
38475 CCCCGTTATTTTCGA-GGGGATACTCCAACC
66 CCCCATTA-TTTC-ACGGGGATACTCCAACC
38505 TCGGTTTTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
107 51 0.64
108 28 0.35
109 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTGTCACAATCGAGGATACTCCAA
CCCCATTATTTCACGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:38785 original size:76 final size:78
Alignment explanation
Indices: 38645--38788 Score: 204
Period size: 76 Copynumber: 1.9 Consensus size: 78
38635 CCCGTTAATC
* *
38645 ATCGCGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTCTTAAAAT
1 ATCGCGGATACTCCAACCCCGTTATTTCC-AGGGGATACTCCAACCCCGGCTTTATTCTCAAAAT
38710 ATTGATTTCCCGTA
65 ATTGATTTCCCGTA
* * *
38724 ATCGGGGATACTCCAACCCTGTTATTT-C-GGGGATACTTCAACCCCGGCTTTA-TCTCCAAAAT
1 ATCGCGGATACTCCAACCCCGTTATTTCCAGGGGATACTCCAACCCCGGCTTTATTCT-CAAAAT
38786 ATT
65 ATT
38789 AAATTTCTCG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 3 0.05
76 30 0.51
78 1 0.02
79 25 0.42
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (78 bp):
ATCGCGGATACTCCAACCCCGTTATTTCCAGGGGATACTCCAACCCCGGCTTTATTCTCAAAATA
TTGATTTCCCGTA
Found at i:39841 original size:14 final size:14
Alignment explanation
Indices: 39822--39884 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 14
39812 TTCGGATCAT
39822 TTTTTTAAATTTTA
1 TTTTTTAAATTTTA
39836 TTTTTTAAATTTTTA
1 TTTTTTAAA-TTTTA
* * *
39851 TTTAATTATGATTATA
1 TTT-TTTA-AATTTTA
39867 TTTTTT--ATTTTA
1 TTTTTTAAATTTTA
39879 TTTTTT
1 TTTTTT
39885 TAATAAACCA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 11 0.27
14 9 0.22
15 10 0.24
16 10 0.24
17 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTTAAATTTTA
Found at i:41839 original size:18 final size:18
Alignment explanation
Indices: 41816--41851 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
41806 GTTACCTATT
*
41816 CTTCATTGTGCCCAACAA
1 CTTCATTATGCCCAACAA
41834 CTTCATTATGCCCAACAA
1 CTTCATTATGCCCAACAA
41852 TAACATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (18 bp):
CTTCATTATGCCCAACAA
Found at i:45456 original size:33 final size:33
Alignment explanation
Indices: 45386--45465 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
45376 GTTGGGCACA
* ** * *
45386 ATGTATCGATACATTGTATCGATACTTTTTACT
1 ATGTATCGATACAATGTATCGATACAATATACC
* *
45419 ATGTATCAATACAATGTATCGATACAATATCCC
1 ATGTATCGATACAATGTATCGATACAATATACC
45452 ATGTATCGATACAA
1 ATGTATCGATACAA
45466 ACAATGGTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACAATATACC
Found at i:51237 original size:9 final size:9
Alignment explanation
Indices: 51225--51273 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
51215 TAAGAGAAAC
51225 AAAAATAAA
1 AAAAATAAA
*
51234 AAAAAGAAA
1 AAAAATAAA
*
51243 AAAAACAAA
1 AAAAATAAA
*
51252 AAAAAAAAA
1 AAAAATAAA
51261 GAATAAATAAA
1 -AA-AAATAAA
51272 AA
1 AA
51274 GGGAACAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 24 0.71
10 4 0.12
11 6 0.18
ACGTcount: A:0.88, C:0.02, G:0.04, T:0.06
Consensus pattern (9 bp):
AAAAATAAA
Found at i:51272 original size:13 final size:13
Alignment explanation
Indices: 51225--51274 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
51215 TAAGAGAAAC
51225 AAAAATAAAAA-A
1 AAAAATAAAAAGA
*
51237 AAGAAA-AAAAACA
1 AA-AAATAAAAAGA
*
51250 AAAAAAAAAAAGA
1 AAAAATAAAAAGA
*
51263 ATAAATAAAAAG
1 AAAAATAAAAAG
51275 GGAACAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.86, C:0.02, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAATAAAAAGA
Found at i:52866 original size:61 final size:62
Alignment explanation
Indices: 52534--54097 Score: 1969
Period size: 62 Copynumber: 25.3 Consensus size: 62
52524 CTTTTAGCCA
* * *
52534 TTTAGTCCTCAAAGAACAGGATGCCTTTTTCCTTTCAAAGCCTACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * *
52596 TTTAGTCCTTAAAAAGTAGGACGTCTTTTTCTTTTCAAAGCCCACACGACTTGGTGCCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * **
52658 TTTAATCCTTAAAGAGCAGGATGTTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *** * *
52720 TTTTGTCCTCAAAGAGCAGGACATCTTTTCCTTTTCAAAGTCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
52782 TTTAGTCCTCAAAGAGCACGATGCCTTTTTCTTTTCAAAGCCCACACGAGTT-GTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
52843 TTTAGTCCTCAAAGAGCAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** * * * *
52905 TTTAGTCCTCAAAGAGCAGGACACCTTTTTTTTTTCAAA-CCAACACTAGTTGATGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * *
52966 TGTAGTCCTCAAAGAGTAGGATGTCTCTTCCTTTTTC-AAGCTCACACGAGTTGGTGGCA-CA
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
53027 TTTAATCCTCAAAGTGCAGGACGCCTTTAT-TTTTC-AAGCCCACATGAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * **
53086 TTTAGTCCTTAAAGAGCAGGACT-CAC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TT
1 TTTAGTCCTCAAAGAGCAGGA-TGC-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * **
53147 TTTACTCCTCAAAGATCAGGATGCCTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** *
53209 TTTAGTCCTCAAAGATTAGGATGCCTTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* ** *
53271 TTTAGTCCTCAAAGAACAGGACACCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* **
53333 TTTTGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCATTCGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * *
53395 TTCAGTCCTCAAAGAGTAGGATGCCTTTTTCATTTCAAAGCCCATATGAGCTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * **
53457 TTTATTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCTACATAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * *
53519 TTTAGTCCTCAAAAAGCAGGACGTCTTTTCCTTTTTC-AAGCCCACACAAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
53580 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTC-AAGCCCACATGAGTTGGTGG-AACC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
**
53640 TTTAGTCCTCAAAGAGCAAGG-TGTATTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CC
1 TTTAGTCCTCAAAGAGC-AGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* *
53701 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTC-AAGCCCATACGAGTTGGTGGCATCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * * * * * *
53762 TTTTGTCCTCAAAAAGCAAGACGCCTTTTTCTTTTCAAAGCCCATACTAGTTGGTGGCACCA
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
53824 TTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACGCGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
53886 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
** * * *
53948 TTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTTC-AAGCCCACATGAGTTGGTGGCACTC
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * *
54010 TTTAGTCCTCAAAGAGCAGAGCAGGACACCTTTTTCTTTTCGAAGCCCATACGAGTTGGTGGCAC
1 TTTAGTCCTCAAAGAGCAG-G-ATG---CCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
*
54075 CT
61 CC
*
54077 TTTAGTCTTCAAAGAGCAGGA
1 TTTAGTCCTCAAAGAGCAGGA
54098 CATCTTTTCT
Statistics
Matches: 1309, Mismatches: 166, Indels: 51
0.86 0.11 0.03
Matches are distributed among these distances:
59 49 0.04
60 87 0.07
61 312 0.24
62 796 0.61
63 11 0.01
64 1 0.00
65 1 0.00
66 6 0.00
67 46 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:57984 original size:50 final size:50
Alignment explanation
Indices: 57921--58053 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 50
57911 TACCCAAAGA
*
57921 TATCGAGACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
1 TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
* * * * *
57971 TATCGATACATTCTTTATTGTATCGAAATATTTTGGGTTTTACTCAGATG
1 TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
* * *
58021 TATTGATACATT-TCTCAATATATCGATACATTC
1 TATCGATACATTCT-TCATTGTATCGATACATTC
58054 AGGCATTTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (50 bp):
TATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGATG
Found at i:60480 original size:79 final size:77
Alignment explanation
Indices: 60352--60822 Score: 405
Period size: 79 Copynumber: 6.0 Consensus size: 77
60342 CTCATCTTGG
* * * ** * *
60352 GGATACTTCAACCCCGTTATTTTCGCGGGGATACTTTAATCCT-GGTTTTATTTTCAAAATACAG
1 GGATACTCCAA-CCCGTTATTTTTGAGGGGATACTCCAA-CCTCGATTTTA-TTTCAAAACACAG
60416 ATTTTCCACCATCGA
63 ATTTTCCACCATCGA
* *
60431 GGATACTCTAATCCCGTTATTTTTGAGGAGATACTCCAACCTCGATTTTATTTCTAAAACATC-G
1 GGATACTCCAA-CCCGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTC-AAAACA-CAG
* * *
60495 ACTTTCCATCATCGG
63 ATTTTCCACCATCGA
* ** * * *
60510 GGATACTCCAACCTCGTTACTTCCGAAGGGATACTCCAACCTTGATTTTATTTCTAAAACACTGA
1 GGATACTCCAACC-CGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTC-AAAACACAGA
60575 TTTTCCACCATCGA
64 TTTTCCACCATCGA
* * * * * **
60589 GG--ACTCCAACCCCATTATGTTCGAGGGGATACTCCAACCCCGATTTTTATATCTAAAACATTG
1 GGATACTCCAA-CCCGTTATTTTTGAGGGGATACTCCAACCTCGA-TTTTATTTC-AAAACACAG
* *
60652 ATTTTTCACAATCGA
63 ATTTTCCACCATCGA
* * * *
60667 GGATACTTCAACCTCGTTATTTCTGAGGGGATGCTCCAACCTCGAATTTATTTCTAAAACATCA-
1 GGATACTCCAACC-CGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTC-AAAACA-CAG
* * *
60731 ATTTTTCACAATCGG
63 ATTTTCCACCATCGA
* **
60746 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAA-CTCCGATTTTATTTCCAAAACATTG
1 GGATACTCCAA-CCCGTTATTTTTGAGGGGATACTCCAACCT-CGATTTTATTT-CAAAACACAG
*
60810 ATTTTTCACCATC
63 ATTTTCCACCATC
60823 AGGGAATGTA
Statistics
Matches: 323, Mismatches: 54, Indels: 30
0.79 0.13 0.07
Matches are distributed among these distances:
77 31 0.10
78 46 0.14
79 211 0.65
80 35 0.11
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (77 bp):
GGATACTCCAACCCGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTCAAAACACAGATT
TTCCACCATCGA
Found at i:60698 original size:157 final size:156
Alignment explanation
Indices: 60352--60818 Score: 530
Period size: 157 Copynumber: 3.0 Consensus size: 156
60342 CTCATCTTGG
* * ** * *
60352 GGATACTTCAACCCCGTTATTT-TCGCGGGGATACTTTAATCC-TGGTTTTATTT-TCAAAATAC
1 GGATACTTCAACCTCGTTATTTCT-GAGGGGATACTCCAA-CCTTGATTTTATTTCT-AAAACAC
* * * * * *
60414 AGATTTTCCACCATCGAGGATACTCTAATCCCGTTATTTTTGAGGAGATACTCCAACCTCGATTT
63 TGATTTTCCACCATCGAGGA-ACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTT
* * * *
60479 TATTTCTAAAACATCGACTTTCCATCATCGG
127 TATTTCTAAAACATTGATTTTTCA-CATCGA
* * * *
60510 GGATACTCCAACCTCGTTACTTCCGAAGGGATACTCCAACCTTGATTTTATTTCTAAAACACTGA
1 GGATACTTCAACCTCGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACACTGA
* *
60575 TTTTCCACCATCGAGG-ACTCCAACCCCATTATGTTCGAGGGGATACTCCAACCCCGATTTTTAT
66 TTTTCCACCATCGAGGAACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGA-TTTTAT
*
60639 ATCTAAAACATTGATTTTTCACAATCGA
130 TTCTAAAACATTGATTTTTCAC-ATCGA
* * * *
60667 GGATACTTCAACCTCGTTATTTCTGAGGGGATGCTCCAACCTCGAATTTATTTCTAAAACA-TCA
1 GGATACTTCAACCTCGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACACT-G
* * * *
60731 ATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACTCCGATTTTA
65 ATTTTCCACCATCGAGGA-ACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTA
*
60796 TTTCCAAAACATTGATTTTTCAC
129 TTTCTAAAACATTGATTTTTCAC
60819 CATCAGGGAA
Statistics
Matches: 262, Mismatches: 39, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
156 36 0.14
157 97 0.37
158 90 0.34
159 39 0.15
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (156 bp):
GGATACTTCAACCTCGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCTAAAACACTGA
TTTTCCACCATCGAGGAACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATT
TCTAAAACATTGATTTTTCACATCGA
Found at i:65242 original size:17 final size:17
Alignment explanation
Indices: 65220--65252 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
65210 ATATTTGTCC
65220 TTCTTGCTCGATTCTCT
1 TTCTTGCTCGATTCTCT
65237 TTCTTGCTCGATTCTC
1 TTCTTGCTCGATTCTC
65253 CTTTTACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.30, G:0.12, T:0.52
Consensus pattern (17 bp):
TTCTTGCTCGATTCTCT
Found at i:65359 original size:3 final size:3
Alignment explanation
Indices: 65351--65382 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
65341 CGAGTCTACT
*
65351 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
65383 TTTGATGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:67124 original size:33 final size:32
Alignment explanation
Indices: 67063--67126 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
67053 ACAATTCTTT
* *
67063 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
*
67095 ATGTATCAATACAAAGCAATATGTATCGATAC
1 ATGTATCAATACAAAG-AACATGTATCGATAC
67127 TTCTGGCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:69788 original size:22 final size:23
Alignment explanation
Indices: 69760--69803 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
69750 TTATGATGCA
69760 TGAATTTTG-AAAATAAT-AATTC
1 TGAATTTTGTAAAA-AATGAATTC
69782 TGAATTTTGTAAAAAATGAATT
1 TGAATTTTGTAAAAAATGAATT
69804 TGATACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (23 bp):
TGAATTTTGTAAAAAATGAATTC
Found at i:72832 original size:9 final size:9
Alignment explanation
Indices: 72810--72843 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
72800 TCAAAACATG
*
72810 AATACTCTAG
1 AATA-TCTAA
72820 AATATCTAA
1 AATATCTAA
72829 AATATCTAA
1 AATATCTAA
72838 AATATC
1 AATATC
72844 ATCAAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (9 bp):
AATATCTAA
Found at i:73095 original size:9 final size:9
Alignment explanation
Indices: 73073--73107 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
73063 GAAAAAAATG
*
73073 AATACTCTAG
1 AATA-TCTAA
73083 AATATCTAA
1 AATATCTAA
73092 AATATCTAA
1 AATATCTAA
73101 AATATCT
1 AATATCT
73108 TGTGTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (9 bp):
AATATCTAA
Found at i:79438 original size:32 final size:33
Alignment explanation
Indices: 79396--79459 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
79386 CATTTTATGG
79396 TGTATCGATACAAAG-AACATTTATCGATACAA
1 TGTATCGATACAAAGCAACATTTATCGATACAA
* * *
79428 TGTATTGATACTAAGCAATATTTATCGATACA
1 TGTATCGATACAAAGCAACATTTATCGATACA
79460 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAAAGCAACATTTATCGATACAA
Found at i:80397 original size:18 final size:19
Alignment explanation
Indices: 80358--80404 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
80348 GTACAAACAT
* *
80358 ACTACTCCTA-CAAATTCG
1 ACTACTCCTATCAAAATCA
80376 ACTACTCCTATCAAAAT-A
1 ACTACTCCTATCAAAATCA
*
80394 ACTAATCCTAT
1 ACTACTCCTAT
80405 GACTAATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.38, C:0.30, G:0.02, T:0.30
Consensus pattern (19 bp):
ACTACTCCTATCAAAATCA
Found at i:82011 original size:32 final size:32
Alignment explanation
Indices: 81952--82014 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
81942 ATATAGTCGA
* *
81952 AATGTATCGATACAATTTTAATTTATCGATAT
1 AATGTATCGATACAATTCTAATATATCGATAT
*
81984 AATGTATCGATACAATGTCT-CTATATCGATA
1 AATGTATCGATACAAT-TCTAATATATCGATA
82015 GATCTGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (32 bp):
AATGTATCGATACAATTCTAATATATCGATAT
Found at i:85625 original size:45 final size:45
Alignment explanation
Indices: 85560--85664 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 45
85550 AATTTTTGTT
*
85560 CCTTAAGGAATCCATTTTATAACTTTATCCTTGGATGCATTGGCTC
1 CCTT-AGGAATCCATTTTATAACTTCATCCTTGGATGCATTGGCTC
*
85606 CCTTAGGAATCCATTTTATAACTTCATCCTTTGATGCATTGGCTC
1 CCTTAGGAATCCATTTTATAACTTCATCCTTGGATGCATTGGCTC
85651 CCTTAGGAATCCAT
1 CCTTAGGAATCCAT
85665 ATTTTCTTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 53 0.93
46 4 0.07
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (45 bp):
CCTTAGGAATCCATTTTATAACTTCATCCTTGGATGCATTGGCTC
Found at i:90192 original size:20 final size:21
Alignment explanation
Indices: 90167--90206 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90157 TCTTAACAGT
90167 CCATGTT-CATGCATTTTATA
1 CCATGTTCCATGCATTTTATA
*
90187 CCATGTTCCTTGCATTTTAT
1 CCATGTTCCATGCATTTTAT
90207 TAAGTCCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (21 bp):
CCATGTTCCATGCATTTTATA
Found at i:91602 original size:97 final size:96
Alignment explanation
Indices: 91466--91668 Score: 257
Period size: 97 Copynumber: 2.1 Consensus size: 96
91456 TTATTTATCA
* * * * *
91466 GGATACTCCAACCTTGTTTTTAAACTTTTTAAGATTTAAATCTTATTTTTACTTAAATTATCATC
1 GGATACTCCAACCTTGCTTTTAAACTTGTCAAGATTTAAATCTTATTTTCACCTAAATTATCATC
* *
91531 ATCGAGGATACTCCAACCCCATT-CTTCTTAGG
66 AT-GAGGACACTCCAACCCCATTCCTTC-GAGG
* * *
91563 GGATACTCCAA-CTCTGCTTTTACACTTGTCAAGATTTAAATCTTATTTTCACCTAAATTGTTAT
1 GGATACTCCAACCT-TGCTTTTAAACTTGTCAAGATTTAAATCTTATTTTCACCTAAATTATCAT
*
91627 CATGGGGACACTCCAACCCCATTCCTTCGAGG
65 CATGAGGACACTCCAACCCCATTCCTTCGAGG
*
91659 AGATACTCCA
1 GGATACTCCA
91669 GCTTCATTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 32 0.35
97 60 0.65
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (96 bp):
GGATACTCCAACCTTGCTTTTAAACTTGTCAAGATTTAAATCTTATTTTCACCTAAATTATCATC
ATGAGGACACTCCAACCCCATTCCTTCGAGG
Found at i:95901 original size:52 final size:52
Alignment explanation
Indices: 95831--95951 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
95821 GAAAATTTAT
*
95831 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
95883 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
95935 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
95952 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:95964 original size:52 final size:51
Alignment explanation
Indices: 95831--95971 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
95821 GAAAATTTAT
95831 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
95883 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
95935 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
95972 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:95978 original size:13 final size:13
Alignment explanation
Indices: 95960--95984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95950 CAAAGATCAG
95960 TGTATCGATACAA
1 TGTATCGATACAA
95973 TGTATCGATACA
1 TGTATCGATACA
95985 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:96065 original size:33 final size:33
Alignment explanation
Indices: 96023--96092 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
96013 GGCAGTAGCT
96023 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
96056 TACATTGTATCGATACAATATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
96089 TACA
1 TACA
96093 AATCATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:96066 original size:13 final size:13
Alignment explanation
Indices: 96048--96072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96038 CAAAAAAATA
96048 TGTATCGATACAT
1 TGTATCGATACAT
96061 TGTATCGATACA
1 TGTATCGATACA
96073 ATATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:99110 original size:20 final size:20
Alignment explanation
Indices: 99085--99138 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
99075 GTTTCAAACA
*
99085 ATGTATCGATACAATCCATC
1 ATGTATCGATACAATCCACC
***
99105 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATCCACC
99125 ATGTATCGATACAA
1 ATGTATCGATACAA
99139 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATCCACC
Found at i:99211 original size:19 final size:19
Alignment explanation
Indices: 99167--99222 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
99157 CTGCCAGTTT
**
99167 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
99187 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
99206 CATGTATCGATATAATG
1 CATGTATCGATACAATG
99223 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:99229 original size:32 final size:33
Alignment explanation
Indices: 99188--99250 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
99178 ACAATTGTGC
*
99188 ATGTATCGATACAATG-A-ACATGTATCGATATA
1 ATGTATCGATACAAAGCATA-ATGTATCGATATA
99220 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
99251 CATCTAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATATA
Found at i:101701 original size:13 final size:13
Alignment explanation
Indices: 101683--101729 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
101673 GTAACCCATA
101683 TATCGATACATTG
1 TATCGATACATTG
101696 TATCGATACCA-TG
1 TATCGATA-CATTG
* *
101709 TATGGATACATTT
1 TATCGATACATTG
101722 TATCGATA
1 TATCGATA
101730 TAATATATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:101716 original size:26 final size:26
Alignment explanation
Indices: 101678--101744 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
101668 AAATAGTAAC
101678 CCATATATCGATACATTGTATCGATA
1 CCATATATCGATACATTGTATCGATA
* * *
101704 CCATGTATGGATACATTTTATCGATA
1 CCATATATCGATACATTGTATCGATA
** *
101730 TAATATATCAATACA
1 CCATATATCGATACA
101745 AAAAACATTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (26 bp):
CCATATATCGATACATTGTATCGATA
Found at i:106271 original size:9 final size:9
Alignment explanation
Indices: 106238--106268 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
106228 TCCGAGTCAA
106238 CATCATTAT
1 CATCATTAT
106247 CATCATTAT
1 CATCATTAT
*
106256 CATCTTTAT
1 CATCATTAT
106265 CATC
1 CATC
106269 TTTGATGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (9 bp):
CATCATTAT
Found at i:107884 original size:20 final size:20
Alignment explanation
Indices: 107859--107917 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 20
107849 GTTTGAAGTA
107859 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
107879 ATG--T--AT-CAATACAT-
1 ATGTATCGATACAATTCATC
107893 -TGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
107912 ATGTAT
1 ATGTAT
107918 ACAATATGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 2 0.07
15 8 0.27
16 2 0.07
17 2 0.07
18 8 0.27
20 8 0.27
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:107902 original size:33 final size:34
Alignment explanation
Indices: 107860--107923 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
107850 TTTGAAGTAA
107860 TGTATCGATACAATTCATCATGTAT-CAATACAT
1 TGTATCGATACAATTCATCATGTATACAATACAT
107893 TGTATCGATACAATTCATCATGTATACAATA
1 TGTATCGATACAATTCATCATGTATACAATA
107924 TGCCATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (34 bp):
TGTATCGATACAATTCATCATGTATACAATACAT
Found at i:110169 original size:15 final size:15
Alignment explanation
Indices: 110149--110179 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
110139 AAATTCCCTT
110149 AAAAAATTATTTAAA
1 AAAAAATTATTTAAA
110164 AAAAAATTATTTAAA
1 AAAAAATTATTTAAA
110179 A
1 A
110180 GAAAGGGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATTATTTAAA
Found at i:111978 original size:29 final size:28
Alignment explanation
Indices: 111914--112126 Score: 166
Period size: 29 Copynumber: 7.5 Consensus size: 28
111904 AACTTTTTCC
** *
111914 AAAGTCCACGACTTAGTGGCACCCCTTCTC
1 AAAGTCCATAACTTAGTGGCA-CCCTT-TT
**
111944 AAAGTCCATAACTTAGTGGCACCCTTCAA
1 AAAGTCCATAACTTAGTGGCACCCTT-TT
* * **
111973 AAAGTCTATAACTCTA-TAGCACTTTTTT
1 AAAGTCCATAACT-TAGTGGCACCCTTTT
*
112001 AAAATCCATAACTTCA-TGGCACCCCTTTT
1 AAAGTCCATAACTT-AGTGGCA-CCCTTTT
* * *
112030 AAAGTCCACAATTTTGTGGCACCCTTTT
1 AAAGTCCATAACTTAGTGGCACCCTTTT
112058 AAAGTCCATAACTCT-GTGGCAACCCTTTT
1 AAAGTCCATAACT-TAGTGGC-ACCCTTTT
**
112087 AAAGTCCATAA-TCTA-TGGTGCCCTTTT
1 AAAGTCCATAACT-TAGTGGCACCCTTTT
*
112114 AAAGTCCACAACT
1 AAAGTCCATAACT
112127 CCATGGCGCT
Statistics
Matches: 151, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
27 18 0.12
28 46 0.30
29 66 0.44
30 21 0.14
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
AAAGTCCATAACTTAGTGGCACCCTTTT
Found at i:112034 original size:57 final size:56
Alignment explanation
Indices: 111944--112190 Score: 187
Period size: 57 Copynumber: 4.4 Consensus size: 56
111934 ACCCCTTCTC
** * **
111944 AAAGTCCATAACTT-AGTGGCACCCTTCAAAAAGTCTATAACTCTATAGCACTTTTTT
1 AAAGTCCATAACTTCA-TGGCACCCTT-TTAAAGTCCATAACTCTATAGCACCCTTTT
* * * * * *
112001 AAAATCCATAACTTCATGGCACCCCTTTTAAAGTCCACAATTTTGTGGCACCCTTTT
1 AAAGTCCATAACTTCATGGCA-CCCTTTTAAAGTCCATAACTCTATAGCACCCTTTT
* * **
112058 AAAGTCCATAAC-TCTGTGGCAACCCTTTTAAAGTCCATAA-TCTATGGTGCCCTTTT
1 AAAGTCCATAACTTC-ATGGC-ACCCTTTTAAAGTCCATAACTCTATAGCACCCTTTT
* * * * * * * *
112114 AAAGTCCACAACTCCATGGCGCTCTTTCAAAGTCTATAACACTATAGCACCTTTTT
1 AAAGTCCATAACTTCATGGCACCCTTTTAAAGTCCATAACTCTATAGCACCCTTTT
* *
112170 AAAGCCCACAAC-TCTATGGCA
1 AAAGTCCATAACTTC-ATGGCA
112191 TTGCCACCTT
Statistics
Matches: 150, Mismatches: 33, Indels: 15
0.76 0.17 0.08
Matches are distributed among these distances:
55 16 0.11
56 56 0.37
57 71 0.47
58 7 0.05
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (56 bp):
AAAGTCCATAACTTCATGGCACCCTTTTAAAGTCCATAACTCTATAGCACCCTTTT
Found at i:112146 original size:84 final size:84
Alignment explanation
Indices: 112023--112230 Score: 193
Period size: 84 Copynumber: 2.4 Consensus size: 84
112013 TTCATGGCAC
* *** * * * *
112023 CCCTTTTAAAGTCCACAATTTTGTGGCACCCTTTTAAAGTCCATAACTCTGTGGCAACCCTTTTA
1 CCCTTTTAAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCATAACACTATAGC-ACCCTTTTA
* *
112088 AAGTCCATAA-TCTATGGTG
65 AAGCCCACAACTCTATGGTG
* * * *
112107 CCCTTTTAAAGTCCACAACTCCATGGCGCTCTTTCAAAGTCTATAACACTATAGCACCTTTTTAA
1 CCCTTTTAAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCATAACACTATAGCACCCTTTTAA
112172 AGCCCACAACTCTATGGCATTG
66 AGCCCACAACTCTATGG---TG
**
112194 CCACCTTTTTTAAAGTCCACAACTTTATGGCACCCTT
1 -C-CC--TTTTAAAGTCCACAACTCCATGGCACCCTT
112231 GAATTAGCAC
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
83 16 0.16
84 51 0.52
87 2 0.02
88 1 0.01
89 2 0.02
91 26 0.27
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (84 bp):
CCCTTTTAAAGTCCACAACTCCATGGCACCCTTTCAAAGTCCATAACACTATAGCACCCTTTTAA
AGCCCACAACTCTATGGTG
Found at i:112186 original size:28 final size:28
Alignment explanation
Indices: 111930--112190 Score: 204
Period size: 28 Copynumber: 9.2 Consensus size: 28
111920 CACGACTTAG
*
111930 TGGCACCCCTTCTCAAAGTCCATAACT-TA
1 TGGCA-CCCTT-TTAAAGTCCATAACTCTA
** *
111959 GTGGCACCCTTCAAAAAGTCTATAACTCTA
1 -TGGCACCCTT-TTAAAGTCCATAACTCTA
* ** *
111989 TAGCACTTTTTTAAAATCCATAACT-TCA
1 TGGCACCCTTTTAAAGTCCATAACTCT-A
* * * *
112017 TGGCACCCCTTTTAAAGTCCACAATTTTG
1 TGGCA-CCCTTTTAAAGTCCATAACTCTA
*
112046 TGGCACCCTTTTAAAGTCCATAACTCTG
1 TGGCACCCTTTTAAAGTCCATAACTCTA
112074 TGGCAACCCTTTTAAAGTCCATAA-TCTA
1 TGGC-ACCCTTTTAAAGTCCATAACTCTA
** * *
112102 TGGTGCCCTTTTAAAGTCCACAACTCCA
1 TGGCACCCTTTTAAAGTCCATAACTCTA
* * * * *
112130 TGGCGCTCTTTCAAAGTCTATAACACTA
1 TGGCACCCTTTTAAAGTCCATAACTCTA
* * * *
112158 TAGCACCTTTTTAAAGCCCACAACTCTA
1 TGGCACCCTTTTAAAGTCCATAACTCTA
112186 TGGCA
1 TGGCA
112191 TTGCCACCTT
Statistics
Matches: 183, Mismatches: 42, Indels: 14
0.77 0.18 0.06
Matches are distributed among these distances:
27 18 0.10
28 93 0.51
29 64 0.35
30 8 0.04
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
TGGCACCCTTTTAAAGTCCATAACTCTA
Found at i:112298 original size:53 final size:53
Alignment explanation
Indices: 112227--112526 Score: 141
Period size: 52 Copynumber: 5.8 Consensus size: 53
112217 TTTATGGCAC
* * * * * *
112227 CCTTGAATTAGCACATTGGCATCCTTCATTATCTTTAAGTCTGATATCG-TTG
1 CCTTGAATCAACAGATTGGCATCCTTCATCATCTTTAAGTCTAATATCGCTAG
* * * * * *
112279 ACTTTGAATCAATAGATTGGCA-CTTTTATCATCTTTAAGCCTAATGTCGCTAG
1 -CCTTGAATCAACAGATTGGCATCCTTCATCATCTTTAAGTCTAATATCGCTAG
* * * * * *
112332 CCTTGAATTAACATATTGGCATCCTTCATCATATTTAAGTCCAATGTTGCTAG
1 CCTTGAATCAACAGATTGGCATCCTTCATCATCTTTAAGTCTAATATCGCTAG
* * * * * ** * * * *
112385 CCATGAATTAGC-GCATTGCCAT-ATTTTTCATCTTTAAGTCCAATGTCGTTGG
1 CCTTGAATCAACAG-ATTGGCATCCTTCATCATCTTTAAGTCTAATATCGCTAG
* * * * * * *
112437 CCTTGAA-CTAGCATATTGGCATTCTT-ATCATTTTTTAGTCCAATGTCGCTA-
1 CCTTGAATC-AACAGATTGGCATCCTTCATCATCTTTAAGTCTAATATCGCTAG
* * * *
112488 CCTCGAATCAGCACATTGGTA-CTCTT-ATCATCTTTAAGT
1 CCTTGAATCAACAGATTGGCATC-CTTCATCATCTTTAAGT
112527 GCAGTGTCAC
Statistics
Matches: 190, Mismatches: 49, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
51 30 0.16
52 98 0.52
53 62 0.33
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (53 bp):
CCTTGAATCAACAGATTGGCATCCTTCATCATCTTTAAGTCTAATATCGCTAG
Found at i:112338 original size:52 final size:52
Alignment explanation
Indices: 112282--112561 Score: 203
Period size: 52 Copynumber: 5.4 Consensus size: 52
112272 ATCGTTGACT
*
112282 TTGAATCAATAGATTGGCACTTTTATCATCTTTAAG-CCTAATGTCGCTAGCC
1 TTGAATCAACAGATTGGCACTTTTATCATCTTTAAGTCC-AATGTCGCTAGCC
* * * * * *
112334 TTGAATTAACATATTGGCATCCTTCATCATATTTAAGTCCAATGTTGCTAGCC
1 TTGAATCAACAGATTGGCA-CTTTTATCATCTTTAAGTCCAATGTCGCTAGCC
* * * * * * *
112387 ATGAATTAGC-GCATTGCCA-TATTTTTCATCTTTAAGTCCAATGTCGTTGGCC
1 TTGAATCAACAG-ATTGGCACT-TTTATCATCTTTAAGTCCAATGTCGCTAGCC
* * * *
112439 TTGAA-CTAGCATATTGGCA-TTCTTATCATTTTTTAGTCCAATGTCGCTA-CC
1 TTGAATC-AACAGATTGGCACTT-TTATCATCTTTAAGTCCAATGTCGCTAGCC
* * * * * * * * *
112490 TCGAATCAGCACATTGGTACTCTTATCATCTTTAAGTGCAGTGTCACAAGCC
1 TTGAATCAACAGATTGGCACTTTTATCATCTTTAAGTCCAATGTCGCTAGCC
* *
112542 TTGAATCTACACATTGGCAC
1 TTGAATCAACAGATTGGCAC
112562 CTTTGTCAAG
Statistics
Matches: 177, Mismatches: 41, Indels: 20
0.74 0.17 0.08
Matches are distributed among these distances:
51 38 0.21
52 97 0.55
53 40 0.23
54 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (52 bp):
TTGAATCAACAGATTGGCACTTTTATCATCTTTAAGTCCAATGTCGCTAGCC
Found at i:113945 original size:14 final size:15
Alignment explanation
Indices: 113917--113945 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113907 TAGAGCTCTT
113917 AAACACCTCCCAAAG
1 AAACACCTCCCAAAG
113932 AAACACCT-CCAAAG
1 AAACACCTCCCAAAG
113946 GTATTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.38, G:0.07, T:0.07
Consensus pattern (15 bp):
AAACACCTCCCAAAG
Found at i:115801 original size:95 final size:96
Alignment explanation
Indices: 115574--115813 Score: 254
Period size: 95 Copynumber: 2.5 Consensus size: 96
115564 TTATTTATTG
* * * * * *
115574 GGATACTCCAACTCCATTATTCTGAGGGGATACTCTAACCTCATTTTTGAACTTATTAAAAGTTA
1 GGATACTCCAACCCCATTTTTCTGAGGGAATACTC-CACCTCATTTTTAAACTTATCAAAAGTTA
** *
115639 AATCTTACTTTTACTTAATTTGTCATCATCGA
65 AATCTTACTTTTACCAAAATTGTCATCATCGA
* * * * *
115671 GGATACTCCAACCCTATTTTT-TCGAGAGAAAACTCCAGCCTCATTTTTAAACTTGTCAAGA-TT
1 GGATACTCCAACCCCATTTTTCT-GAGGGAATACTCCA-CCTCATTTTTAAACTTATCAAAAGTT
* *
115734 -TATCTTA-TTTTCACCAAAATTGTCATCGTCGA
64 AAATCTTACTTTT-ACCAAAATTGTCATCATCGA
*
115766 GGATACTCCAACCCCATTTTTCTAAGGGAATACTCCCACCTCATTTTT
1 GGATACTCCAACCCCATTTTTCTGAGGGAATACT-CCACCTCATTTTT
115814 TATATCAAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
94 4 0.03
95 60 0.51
96 8 0.07
97 46 0.39
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (96 bp):
GGATACTCCAACCCCATTTTTCTGAGGGAATACTCCACCTCATTTTTAAACTTATCAAAAGTTAA
ATCTTACTTTTACCAAAATTGTCATCATCGA
Found at i:119729 original size:15 final size:16
Alignment explanation
Indices: 119709--119743 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
119699 ACCACATTTT
*
119709 TTTTAGAAATATT-AA
1 TTTTAGAAAAATTGAA
119724 TTTTAGAAAAATTGAA
1 TTTTAGAAAAATTGAA
119740 TTTT
1 TTTT
119744 TCTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (16 bp):
TTTTAGAAAAATTGAA
Found at i:119767 original size:23 final size:21
Alignment explanation
Indices: 119732--119774 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
119722 AATTTTAGAA
*
119732 AAATTGAATTTTTCTAAATTTTT
1 AAATTGAA-CTTT-TAAATTTTT
*
119755 AAATTTAACTTTTAAATTTT
1 AAATTGAACTTTTAAATTTT
119775 AAAAATTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
AAATTGAACTTTTAAATTTTT
Found at i:119941 original size:111 final size:113
Alignment explanation
Indices: 119759--119960 Score: 277
Period size: 112 Copynumber: 1.8 Consensus size: 113
119749 ATTTTTAAAT
* * * * *
119759 TTAACTTTTAAATTTTAAAAATTACGTTTTGTACCTGACGGAAAACTAAAGGATACGAAAAGTGT
1 TTAACTTCTAAATTTCAAAAATTACGTTTCGTACCTAACGAAAAACTAAAGGATACGAAAAGTGT
*
119824 TTAAAAA-AATTTTCATACCCCTACAGAAAGCCACAGAGATACGAAAA
66 TAAAAAAGAATTTTCATACCCCTACAGAAAGCCACAGAGATACGAAAA
* *
119871 TTAACTTCT-AATTTCAAAAATTATGTTTCGTACCTAACGAAAAAACT-AAGAGATACGAAAGGT
1 TTAACTTCTAAATTTCAAAAATTACGTTTCGTACCTAACG-AAAAACTAAAG-GATACGAAAAGT
*
119934 G-TAAAAAAGAATTTTCATAGCCCTACA
64 GTTAAAAAAGAATTTTCATACCCCTACA
119961 AAAAACCATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
111 35 0.45
112 43 0.55
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (113 bp):
TTAACTTCTAAATTTCAAAAATTACGTTTCGTACCTAACGAAAAACTAAAGGATACGAAAAGTGT
TAAAAAAGAATTTTCATACCCCTACAGAAAGCCACAGAGATACGAAAA
Found at i:121354 original size:18 final size:18
Alignment explanation
Indices: 121331--121366 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
121321 TTCTTCCATT
121331 TTGCATTCATTTGCTGCA
1 TTGCATTCATTTGCTGCA
121349 TTGCATTCATTTGCTGCA
1 TTGCATTCATTTGCTGCA
121367 GCTTAATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (18 bp):
TTGCATTCATTTGCTGCA
Found at i:121961 original size:50 final size:50
Alignment explanation
Indices: 121866--121983 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 50
121856 ACGTGTGAAC
* *
121866 ACATGTATGGAATTATGAAATGAAAGCATGAAATCCAATGCAATGCAATG
1 ACATGTATGGAATTATGAAATGAAAGAAAGAAATCCAATGCAATGCAATG
*
121916 ACATGTATGGAATTATGAAATGAAATGAAAGCATGGAATCGAATGCAATGCAATG
1 ACATGTATGGAATTATGAAATGAAA-GAAAG-A---AATCCAATGCAATGCAATG
*
121971 ACACGTATGGAAT
1 ACATGTATGGAAT
121984 CCAATGCAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 25 0.42
51 3 0.05
52 1 0.02
55 30 0.51
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (50 bp):
ACATGTATGGAATTATGAAATGAAAGAAAGAAATCCAATGCAATGCAATG
Found at i:121964 original size:55 final size:56
Alignment explanation
Indices: 121880--122028 Score: 201
Period size: 55 Copynumber: 2.6 Consensus size: 56
121870 GTATGGAATT
* * *
121880 ATGAAATGAAAGCATGAAATCCAATGCAATGCAATGACATGTATGGAAT-TATGAA
1 ATGAAATGAAAGCATGGAATCCAATGCAATGCAATGACACGTATGGAATCAATGAA
* *
121935 ATGAAATGAAAGCATGGAATCGAATGCAATGCAATGACACGTATGGAATCCAATGCA
1 ATGAAATGAAAGCATGGAATCCAATGCAATGCAATGACACGTATGGAAT-CAATGAA
* * *
121992 ATGCAATGACACGTATGGAATCCAATGCAATGCAATG
1 ATGAAATGA-AAGCATGGAATCCAATGCAATGCAATG
122029 CATTTGCTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
55 46 0.56
57 12 0.15
58 24 0.29
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (56 bp):
ATGAAATGAAAGCATGGAATCCAATGCAATGCAATGACACGTATGGAATCAATGAA
Found at i:121989 original size:29 final size:29
Alignment explanation
Indices: 121897--122028 Score: 180
Period size: 29 Copynumber: 4.7 Consensus size: 29
121887 GAAAGCATGA
*
121897 AATCCAATGCAATGCAATGACATGTATGG
1 AATCCAATGCAATGCAATGACACGTATGG
* * * * *
121926 AAT--TATGAAATGAAATGA-AAGCATGG
1 AATCCAATGCAATGCAATGACACGTATGG
*
121952 AATCGAATGCAATGCAATGACACGTATGG
1 AATCCAATGCAATGCAATGACACGTATGG
121981 AATCCAATGCAATGCAATGACACGTATGG
1 AATCCAATGCAATGCAATGACACGTATGG
122010 AATCCAATGCAATGCAATG
1 AATCCAATGCAATGCAATG
122029 CATTTGCTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 9 0.10
27 12 0.13
28 12 0.13
29 56 0.63
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (29 bp):
AATCCAATGCAATGCAATGACACGTATGG
Found at i:122134 original size:5 final size:5
Alignment explanation
Indices: 122076--122115 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
122066 CATTAATTCA
*
122076 ATTTT -TTTA ATTTT ATTTT ATTTT ATTTT ATTATT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATTTT
122116 TTAATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.74
6 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:122146 original size:19 final size:19
Alignment explanation
Indices: 122078--122167 Score: 77
Period size: 19 Copynumber: 4.9 Consensus size: 19
122068 TTAATTCAAT
122078 TTTTTTAA-TTTTATTTTA
1 TTTTTTAATTTTTATTTTA
122096 --TTTT-A-TTTTATTATTA
1 TTTTTTAATTTTTATT-TTA
***
122112 TTTTTTAATACATATTTTA
1 TTTTTTAATTTTTATTTTA
122131 TTTTTTAATTTTTA-TTTA
1 TTTTTTAATTTTTATTTTA
122149 TTTATTT-ATTTATTATTTT
1 TTT-TTTAATTT-TTATTTT
122168 TATTATTCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
15 8 0.14
16 7 0.12
18 15 0.26
19 21 0.36
20 7 0.12
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTAATTTTTATTTTA
Found at i:122150 original size:4 final size:4
Alignment explanation
Indices: 122127--122166 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
122117 TAATACATAT
*
122127 TTTA TTT- TTTA ATT- TTTA TTTA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
122167 TTATTATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 8 0.26
4 23 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:122737 original size:42 final size:41
Alignment explanation
Indices: 122691--123401 Score: 397
Period size: 42 Copynumber: 17.1 Consensus size: 41
122681 AAAAGGTGGA
*
122691 AAAGTCTCCAGGGTTAAAGCCGACAGGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * *
122733 AAAGT-T------TCCAAGCCGACAAGCAAACTTGAGGTAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * * * * * * *
122769 -CAGTCTTCAGGGTCAAAGCCAATAGGTATACTTTAGAT-GAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGTAG-G
* * * * **
122810 ACAGTCTCTAGGGTCAAAGCTGACAGGCAGACTGAAAGTTTG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTG-AGGTAGG
** * * * *
122852 AAAGTCTCCAGGGTCAAAGCTAATAGGCAAACTTCAGATAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * * *
122895 -CAGTCTCTAGGGTCAAAGCCAACAGGCAGATTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * * *
122936 AAAGTCTCAAGGGTCAAAGTCGATAGGCAGACTTTAGATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * *
122979 -CAGTCTCCAAGGTCAAAGCCGACAGGCAAACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * *
123020 AAAGTCTCTAGGGTCAAAGCTGACAGGCAAACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * *
123062 AAAGTCTCCAAGGTCAAAGACGACAGGCAGACTTTAGATAAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * ** * *
123105 -CAGTCTCTAGGGTCAAAGCCGACAACCAGACTAAGGGTAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
** * * * **
123146 AAAGTCTTTAGGGTCAAAGCTGACATGCAGACTTTAAATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * *
123189 -TAGTCTCCAGAGTCAAAGCCGATAGGCAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * *
123230 AAAGTCTCCAGGGTCAAAGCTGACAGGTAGACTTTAGATGAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGT-AGG
* * * * * *
123273 -CAGTCTCCAAGGTTAAAGTCGACAAGAAGACTGAGGGTAGG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA-GGTAGG
* * * * * * *
123314 AAAGTCTCTAGGGTCAAAGCCGACAAGTAAACTTTAGATAAG
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGGTAGG
* * * *
123356 ATAGTCTCTAGGGTCAAAGCCGACAGGCAGATTGAGGTAGA
1 AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGTAGG
123397 AAAGT
1 AAAGT
123402 TTTCTAGTGC
Statistics
Matches: 502, Mismatches: 133, Indels: 69
0.71 0.19 0.10
Matches are distributed among these distances:
35 21 0.04
36 7 0.01
40 1 0.00
41 36 0.07
42 414 0.82
43 23 0.05
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (41 bp):
AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGTAGG
Found at i:123319 original size:168 final size:168
Alignment explanation
Indices: 123022--123401 Score: 503
Period size: 168 Copynumber: 2.3 Consensus size: 168
123012 AGGGTAGGAA
* *
123022 AGTCTCTAGGGTCAAAGCTGACAGGCAAACTGAGGGTAGGAAAGTCTCCAAGGTCAAAGACGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAAGGTCAAAGACGACA
* * *
123087 GGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACAACCAGACTAAGGGTAAGAAAGTC
66 GGCAGACTTTAGATAAGGCAGTCTCCAAGGTCAAAGCCGACAACAAGACTAAGGGTAAGAAAGTC
* * * * * *
123152 TTTAGGGTCAAAGCTGACATGCAGACTTTAAATGAGGT
131 TCTAGGGTCAAAGCCGACAAGCAAACTTTAAATAAGAT
* * * *
123190 AGTCTCCAGAGTCAAAGCCGATAGGCAGACTGAGGGTAGGAAAGTCTCCAGGGTCAAAG-CTGAC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAAGGTCAAAGAC-GAC
* * * * * * *
123254 AGGTAGACTTTAGATGAGGCAGTCTCCAAGGTTAAAGTCGACAAGAAGACTGAGGGTAGGAAAGT
65 AGGCAGACTTTAGATAAGGCAGTCTCCAAGGTCAAAGCCGACAACAAGACTAAGGGTAAGAAAGT
* *
123319 CTCTAGGGTCAAAGCCGACAAGTAAACTTTAGATAAGAT
130 CTCTAGGGTCAAAGCCGACAAGCAAACTTTAAATAAGAT
* *
123358 AGTCTCTAGGGTCAAAGCCGACAGGCAGATTGA-GGTAGAAAAGT
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGT
123402 TTTCTAGTGC
Statistics
Matches: 182, Mismatches: 29, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
167 11 0.06
168 171 0.94
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (168 bp):
AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAAGGTCAAAGACGACA
GGCAGACTTTAGATAAGGCAGTCTCCAAGGTCAAAGCCGACAACAAGACTAAGGGTAAGAAAGTC
TCTAGGGTCAAAGCCGACAAGCAAACTTTAAATAAGAT
Found at i:123408 original size:84 final size:84
Alignment explanation
Indices: 122896--123401 Score: 450
Period size: 84 Copynumber: 6.0 Consensus size: 84
122886 CAGATAAGGC
* * * * * *
122896 AGTCTCTAGGGTCAAAGCCAACAGGCAGA-TTGAGGGT-AGGAAAGTCTCAAGGGTCAAAGTCGA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG-CAGTCTCTAGGGTCAAAGCCGA
* * * *
122959 TAGGCAGACTTTA-GATGAGG-C
64 CAGGCAGAC-TGAGGGT-AGGAA
* * * * * * *
122980 AGTCTCCAAGGTCAAAGCCGACAGGCAAAC-TGAGGGT-AGGAAAGTCTCTAGGGTCAAAGCTGA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGG-CAGTCTCTAGGGTCAAAGCCGA
*
123043 CAGGCAAACTGAGGGTAGGAA
64 CAGGCAGACTGAGGGTAGGAA
* * *
123064 AGTCTCCAAGGTCAAAGACGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACA
** * *
123129 ACCAGACTAAGGGTAAGAA
66 GGCAGACTGAGGGTAGGAA
* * * * * * * * *
123148 AGTCTTTAGGGTCAAAGCTGACATGCAGACTTTAAATGAGGTAGTCTCCAGAGTCAAAGCCGATA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACA
123213 GGCAGACTGAGGGTAGGAA
66 GGCAGACTGAGGGTAGGAA
* * * * * * * *
123232 AGTCTCCAGGGTCAAAGCTGACAGGTAGACTTTAGATGAGGCAGTCTCCAAGGTTAAAGTCGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACA
* *
123297 AGAAGACTGAGGGTAGGAA
66 GGCAGACTGAGGGTAGGAA
* * * **
123316 AGTCTCTAGGGTCAAAGCCGACAAGTAAACTTTAGATAAGATAGTCTCTAGGGTCAAAGCCGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACA
* *
123381 GGCAGATTGA-GGTAGAAA
66 GGCAGACTGAGGGTAGGAA
123399 AGT
1 AGT
123402 TTTCTAGTGC
Statistics
Matches: 350, Mismatches: 67, Indels: 11
0.82 0.16 0.03
Matches are distributed among these distances:
83 15 0.04
84 330 0.94
85 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (84 bp):
AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGGCAGTCTCTAGGGTCAAAGCCGACA
GGCAGACTGAGGGTAGGAA
Found at i:124865 original size:18 final size:18
Alignment explanation
Indices: 124811--124869 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
124801 TTCATTCGAT
*
124811 TTTTTTTCTTTTTTTTCA
1 TTTTTTTCTTTTTTTTTA
124829 TTTTTTTCTTTTTAATTTTA
1 TTTTTTTCTTTTT--TTTTA
*
124849 TTTTTCTCTTTTTTTTT-
1 TTTTTTTCTTTTTTTTTA
124866 TTTT
1 TTTT
124870 GCATAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 4 0.11
18 17 0.46
20 16 0.43
ACGTcount: A:0.07, C:0.08, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTTTA
Found at i:124867 original size:20 final size:20
Alignment explanation
Indices: 124819--124867 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
124809 ATTTTTTTTC
* *
124819 TTTTTTTTCATTTTTTTCTT
1 TTTTTTTTTATTTTTCTCTT
**
124839 TTTAATTTTATTTTTCTCTT
1 TTTTTTTTTATTTTTCTCTT
124859 TTTTTTTTT
1 TTTTTTTTT
124868 TTGCATAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTATTTTTCTCTT
Found at i:136363 original size:21 final size:21
Alignment explanation
Indices: 136338--136389 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
136328 AATTGAATTT
136338 TTCTAAATTTTTAAATTTAAC
1 TTCTAAATTTTTAAATTTAAC
136359 TTCTAAATTTTTAAATTTAAC
1 TTCTAAATTTTTAAATTTAAC
*
136380 TTTTAAATTT
1 TTCTAAATTT
136390 CAAAAATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (21 bp):
TTCTAAATTTTTAAATTTAAC
Found at i:138568 original size:72 final size:72
Alignment explanation
Indices: 138451--138594 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
138441 TTTTCATTTA
138451 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
1 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
138516 TGCAATG
66 TGCAATG
138523 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
1 TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
*
138588 TTCAATG
66 TGCAATG
138595 ACACGTATGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (72 bp):
TTACAATTGTTCACGTGTGAACACATGTATGGAATTATGAAGTGAAAGCATGAAATCCAATGCAA
TGCAATG
Found at i:138776 original size:30 final size:29
Alignment explanation
Indices: 138740--138827 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
138730 TAATTTGATT
138740 TTTTTTAATTTTAATTTTATTTTATTATTA
1 TTTTTTAATTTT-ATTTTATTTTATTATTA
*
138770 TTTTTTAATACATT-TTTTATTTT-TTAATTA
1 TTTTTTAAT--TTTATTTTATTTTATT-ATTA
138800 TTTATTT-A-TTTATTTTATTTTTATTATT
1 TTT-TTTAATTTTATTTTA-TTTTATTATT
138828 CATATTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 9 0.18
30 28 0.57
31 3 0.06
32 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTTTAATTTTATTTTATTTTATTATTA
Found at i:138791 original size:19 final size:19
Alignment explanation
Indices: 138767--138810 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
138757 TATTTTATTA
138767 TTATTTTTTAATACATTT-T
1 TTATTTTTTAAT-CATTTAT
*
138786 TTATTTTTTAATTATTTAT
1 TTATTTTTTAATCATTTAT
138805 TTATTT
1 TTATTT
138811 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTTTAATCATTTAT
Found at i:139344 original size:30 final size:30
Alignment explanation
Indices: 139308--139367 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
139298 AAGAGAATGT
*
139308 TTCTTACACTTGTAATAGGAGGACCATCAA
1 TTCTTACACTTGTAATAAGAGGACCATCAA
139338 TTCTTACACTTGTAATAAGAGGACCATCAA
1 TTCTTACACTTGTAATAAGAGGACCATCAA
139368 ACGAATTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (30 bp):
TTCTTACACTTGTAATAAGAGGACCATCAA
Found at i:142243 original size:24 final size:23
Alignment explanation
Indices: 142182--142243 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
142172 GACATGAATT
*
142182 TAAAATAATTAAAAATTGGCTCAA
1 TAAAATAATT-AAAATAGGCTCAA
* *
142206 TATAAGTAAATAAAATAGGCTCAAA
1 TA-AAATAATTAAAATAGGCTC-AA
*
142231 TAAATTAATTAAA
1 TAAAATAATTAAA
142244 TAAGCACGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
TAAAATAATTAAAATAGGCTCAA
Found at i:142244 original size:23 final size:24
Alignment explanation
Indices: 142184--142245 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
142174 CATGAATTTA
* *
142184 AAATAATTAAAAATTGGCTCAATAT
1 AAATAAAT-AAAATAGGCTCAATAT
*
142209 AAGTAAATAAAATAGGCTCAA-AT
1 AAATAAATAAAATAGGCTCAATAT
* *
142232 AAATTAATTAAATA
1 AAATAAATAAAATA
142246 AGCACGTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 13 0.42
24 12 0.39
25 6 0.19
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATAAATAAAATAGGCTCAATAT
Found at i:142927 original size:17 final size:17
Alignment explanation
Indices: 142905--142943 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
142895 CACTAAAAGA
*
142905 ATAATTAATACTAAAAC
1 ATAATTAATAATAAAAC
142922 ATAATTAATAATAAAAC
1 ATAATTAATAATAAAAC
142939 ATAAT
1 ATAAT
142944 ATCATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATTAATAATAAAAC
Found at i:145589 original size:21 final size:21
Alignment explanation
Indices: 145552--145594 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
145542 TATCCCAACT
*
145552 TATATAGTCAAAATATTTATG
1 TATATAGTCAAAATATTAATG
*
145573 TATATA-TCAACACTATTAATG
1 TATATAGTCAA-AATATTAATG
145594 T
1 T
145595 TAAATCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (21 bp):
TATATAGTCAAAATATTAATG
Found at i:149717 original size:17 final size:17
Alignment explanation
Indices: 149695--149727 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
149685 ATCAAAAAAT
*
149695 CAAACATAGATAAATCC
1 CAAACACAGATAAATCC
149712 CAAACACAGATAAATC
1 CAAACACAGATAAATC
149728 AATCTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.15
Consensus pattern (17 bp):
CAAACACAGATAAATCC
Found at i:152412 original size:3 final size:3
Alignment explanation
Indices: 152404--152439 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
152394 CAACTAATCT
152404 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
152440 ATTTCTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:157188 original size:52 final size:52
Alignment explanation
Indices: 157110--157236 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
157100 AAATATAAAC
* *
157110 ATTTGCGTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGAAA
1 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGAAA
* *
157162 ATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
1 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGAAA
*
157214 ATTTGCCTGCATGTATCAATACA
1 ATTTGCCTGCATGTATCGATACA
157237 AAGATTAGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGAAA
Found at i:157251 original size:52 final size:52
Alignment explanation
Indices: 157110--157256 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 52
157100 AAATATAAAC
* * ** *
157110 ATTTGCGTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGAAA
1 ATTTGCCTGCATGTATCAATACATAACATAGTGTATCGATACATCTAGGAAA
* * ** *
157162 ATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
1 ATTTGCCTGCATGTATCAATACATAACATAGTGTATCGATACATCTAGGAAA
* *
157214 ATTTGCCTGCATGTATCAATACA-AAGATTAGTATATCGATACA
1 ATTTGCCTGCATGTATCAATACATAACA-TAGTGTATCGATACA
157257 ATGTATTGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 1 0.01
52 83 0.99
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
ATTTGCCTGCATGTATCAATACATAACATAGTGTATCGATACATCTAGGAAA
Found at i:157349 original size:13 final size:13
Alignment explanation
Indices: 157331--157355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157321 ACAAAACTTA
157331 TGTATCGATACAT
1 TGTATCGATACAT
157344 TGTATCGATACA
1 TGTATCGATACA
157356 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:157351 original size:32 final size:33
Alignment explanation
Indices: 157310--157375 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
157300 AGTAGCTTAA
157310 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
157342 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
157375 A
1 A
157376 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:157594 original size:19 final size:19
Alignment explanation
Indices: 157570--157609 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
157560 CATTTTCGTC
*
157570 CCCACATACGTCGAATATT
1 CCCACATACGTCGAAAATT
157589 CCCACATACGTCGAAAATT
1 CCCACATACGTCGAAAATT
157608 CC
1 CC
157610 ACCTACTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.23
Consensus pattern (19 bp):
CCCACATACGTCGAAAATT
Found at i:158454 original size:43 final size:43
Alignment explanation
Indices: 158338--158849 Score: 484
Period size: 43 Copynumber: 11.2 Consensus size: 43
158328 TAAAGATGGA
* ** * *
158338 AAAGGTGCCAATAAGCTGATTCAAGGTCAGCTATATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
158381 AAAGGTGAAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTT
1 AAA---G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
158430 AAAGATGCCAATGTGCTGACTCAAGGCCAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
158473 AAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-GA---TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
158522 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
158565 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT
1 --AA-A-GA---TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
158615 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACGTTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
158658 AAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 --AA-A-GA---TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
158708 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
158751 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -AA-A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
158800 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
158843 AAAGATG
1 AAAGATG
158850 AAGGTGCCAA
Statistics
Matches: 387, Mismatches: 50, Indels: 64
0.77 0.10 0.13
Matches are distributed among these distances:
43 180 0.47
44 4 0.01
45 7 0.02
46 11 0.03
47 6 0.02
48 8 0.02
49 104 0.27
50 67 0.17
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (43 bp):
AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:158500 original size:92 final size:92
Alignment explanation
Indices: 158338--158897 Score: 913
Period size: 92 Copynumber: 6.1 Consensus size: 92
158328 TAAAGATGGA
** * * * * *
158338 AAAGGTGCCAATAAGCTGATTCAAGGTCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
158403 TGATTCAAGGCCAGCGACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
158430 AAAGATGCCAATGTGCTGACTCAAGGCCAGCTACATTGGACTTAAAGATGAGGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
158495 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
158522 AAAGGTGCCAATGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATG
*
158587 CTGATTCAAGGCTAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
* * *
158615 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACGTTGGACTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATG
158680 CTGATTCAAGGCCAGCGATATTGGACTT
65 CTGATTCAAGGCCAGCGATATTGGACTT
*
158708 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
158773 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
158800 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
158865 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
158892 AGAAGG
1 A-AAGG
158898 GTTGCCACCG
Statistics
Matches: 439, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
92 258 0.59
93 181 0.41
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:158707 original size:278 final size:276
Alignment explanation
Indices: 158338--158897 Score: 913
Period size: 278 Copynumber: 2.0 Consensus size: 276
158328 TAAAGATGGA
* * * *
158338 AAAGGTGCCAATAAGCTGATTCAAGGTCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGA
1 AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGA
158403 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGACTCAAGGCCAGCTACATTG
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGACTCAAGGCCAGCTACATTG
*
158468 GACTTAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAA
131 GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAA
*
158533 TGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAAGATGAGGGTGCCAATATGCTGATTCAAGG
196 TGTGCTGATTCAAGGCAAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATTCAAGG
*
158598 CTAGCGATATTGGACTT
260 CCAGCGATATTGGACTT
** * * *
158615 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACGTTGGACTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATG
* * * * *
158680 CTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATT
65 ATGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGACTCAAGGCCAGCTACATT
*
158745 GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCA
130 GGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCA
*
158810 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
195 ATGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
*
158875 CCAGCGATATTGGGCTT
260 CCAGCGATATTGGACTT
158892 AGAAGG
1 A-AAGG
158898 GTTGCCACCG
Statistics
Matches: 261, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
277 84 0.32
278 177 0.68
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (276 bp):
AAAGGTGCCAATAAGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGA
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGACTCAAGGCCAGCTACATTG
GACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAA
TGTGCTGATTCAAGGCAAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
CAGCGATATTGGACTT
Found at i:159075 original size:36 final size:33
Alignment explanation
Indices: 158931--159751 Score: 486
Period size: 34 Copynumber: 25.8 Consensus size: 33
158921 TTAGAAGAGA
*
158931 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
* * *
158965 --AAGGTGCCACGGAGTCGCGGACTTTGAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
**
158996 --AAGGTGCCACGGAGTCATGGAC-TTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* *
159026 AACTAGGTGCCACGGGGTTGTGGACTTTAAAAGGG
1 AA-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GG
*
159061 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 -AAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
* * *
159096 --AAGGTGCCACAGAGTCGTGGAC-TTAAAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
159126 AAAAGGTGCCACGAAG-TGATGGGCTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTG-TGGACTTT-AAAAGG
*
159160 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
159193 --AAGGTGCCACGGAGTCGTGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
159225 AAAAGGTGCCATGGAGTCGTGGACTTT-----G
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* *
159253 ---A--TGCCACTGAGTTGTGGACTTT--GA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * ** *
159278 ACAAGATGCCACTAAGTCGTGGAC-TTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
159310 AACAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGG
1 -A-AAAG-GTGCCACGGAGTTGTGGACTTTAAAA-GG
* *
159347 AAAAAGAGTGCCACGGAGTTCTGGGCTTTGAAAA-G
1 -AAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
* * *
159382 --AAGGTGCCACGGAGTCGCGGACTTTGAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
159413 --AAGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
159443 AACAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-G
1 AA-AAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
*
159476 ----GGTGCCACGGAGTTGTGGAC-TTAGAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
159504 AAAAAAAGTGCCACGGAGTTGTAGG-C-TTAAAA-G
1 --AAAAGGTGCCACGGAGTTGT-GGACTTTAAAAGG
* *
159537 ----GGTGCCACAGAGTTGTGGAC-TTAGAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
159565 AAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAACG
1 -AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
*
159598 ----GGTGCCACGGAGTTGTGGAC-TTAGAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
159626 AAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGG
1 -AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
* *
159660 AAAAAGAGTGCCACGGAGTTATGGGCTTT-AAA--
1 -AAAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG
* *
159692 AAGA-GTGCCACGGAGTTGTGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
159725 AAAAGGTGCCACAGAGTCGTGGACTTT
1 AAAAGGTGCCACGGAGTTGTGGACTTT
159752 GGAAAGAGAT
Statistics
Matches: 641, Mismatches: 77, Indels: 138
0.75 0.09 0.16
Matches are distributed among these distances:
23 18 0.03
25 2 0.00
26 2 0.00
27 62 0.10
28 8 0.01
29 26 0.04
30 39 0.06
31 132 0.21
32 26 0.04
33 34 0.05
34 200 0.31
35 27 0.04
36 53 0.08
37 12 0.02
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.20
Consensus pattern (33 bp):
AAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
Done.