Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014654.1 Kokia drynarioides strain JFW-HI SEQ_129693, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 84753
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Warning! 23 characters in sequence are not A, C, G, or T
Found at i:3750 original size:22 final size:21
Alignment explanation
Indices: 3708--3750 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
3698 AAATAGGTTT
**
3708 GACGTCACGACGTCATGACGA
1 GACGTCACGACGTCACAACGA
*
3729 GACGATCACGACGTCGCAACGA
1 GACG-TCACGACGTCACAACGA
3751 CGCTACGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.30, C:0.30, G:0.28, T:0.12
Consensus pattern (21 bp):
GACGTCACGACGTCACAACGA
Found at i:6477 original size:39 final size:39
Alignment explanation
Indices: 6434--6511 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
6424 AAATATATAT
6434 TTTGAATTTGACTTTTGCAATAAAACCTAACCAAGCTCA
1 TTTGAATTTGACTTTTGCAATAAAACCTAACCAAGCTCA
*
6473 TTTGAATTTGACTTTTGCAATCAAACCTAACCAAGCTCA
1 TTTGAATTTGACTTTTGCAATAAAACCTAACCAAGCTCA
6512 AATTATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (39 bp):
TTTGAATTTGACTTTTGCAATAAAACCTAACCAAGCTCA
Found at i:10329 original size:36 final size:35
Alignment explanation
Indices: 10256--10330 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 35
10246 TTTAAATTAG
10256 TTTAAATTTATTTTTAAATTTTAAATTTATCTTAAA
1 TTTAAATTTATTTTTAAATTTTAAATTTATC-TAAA
10292 TTTAAATTTATCTTTTTAAA-TTTAAATTTAATC-AAA
1 TTTAAATTTA--TTTTTAAATTTTAAATTT-ATCTAAA
10328 TTT
1 TTT
10331 GAATGGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
36 16 0.44
37 9 0.25
38 11 0.31
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTAAATTTATTTTTAAATTTTAAATTTATCTAAA
Found at i:11131 original size:16 final size:16
Alignment explanation
Indices: 11106--11136 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11096 GTTCCATTAA
*
11106 TAATATTAATAATAAT
1 TAATACTAATAATAAT
11122 TAATACTAATAATAA
1 TAATACTAATAATAA
11137 ATAAAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATACTAATAATAAT
Found at i:12281 original size:30 final size:29
Alignment explanation
Indices: 12214--12624 Score: 375
Period size: 30 Copynumber: 14.0 Consensus size: 29
12204 CCTTGGAGGT
*
12214 CCCT-AAACTATCCAAAAATCCCATTTTTA
1 CCCTAAAACT-TCCAAAAATTCCATTTTTA
* *
12243 CCCCAAAACTTCCAAAAATTACATTTTTGA
1 CCCTAAAACTTCCAAAAATTCCATTTTT-A
*
12273 CCCTAAAACTTCCCAAAATTCCATTTTTGA
1 CCCTAAAACTTCCAAAAATTCCATTTTT-A
* * *
12303 TCCTAAAACTTCCTAATATTCCA-TTTTA
1 CCCTAAAACTTCCAAAAATTCCATTTTTA
*
12331 CCCCT-AAACTTCCTAAAATTCCATTTTTTA
1 -CCCTAAAACTTCCAAAAATTCCA-TTTTTA
* *
12361 TCCTAAAACTTCCTAAAATTCCATTTTTA
1 CCCTAAAACTTCCAAAAATTCCATTTTTA
** *
12390 CCCCCAAACTTCCAAAAATTTCATTTTTAA
1 CCCTAAAACTTCCAAAAATTCCATTTTT-A
* *
12420 CCCCAAAACTTCCAAAAATTCCATTCTTA
1 CCCTAAAACTTCCAAAAATTCCATTTTTA
* *
12449 ACCTCAAAACTTCCAAAAACTCCA-TTTTA
1 CCCT-AAAACTTCCAAAAATTCCATTTTTA
* *
12478 CCCTCAAACTTCCAAAAATTCTATTTTTA
1 CCCTAAAACTTCCAAAAATTCCATTTTTA
*** * *
12507 CCCCCCGAACTTCTAAGAATTCCATTTTTGA
1 -CCCTAAAACTTCCAAAAATTCCATTTTT-A
* * *
12538 CCTTGAAACTTCAAAAAATTCCATTTTTA
1 CCCTAAAACTTCCAAAAATTCCATTTTTA
** *
12567 CCCTCGAA-TCTCCAAAATTTCCATTTTTGA
1 CCCTAAAACT-TCCAAAAATTCCATTTTT-A
* * *
12597 CCTTGAAACTTTCAAAAATTACC-TTTTT
1 CCCTAAAACTTCCAAAAATT-CCATTTTT
12625 GCCCCTGGAT
Statistics
Matches: 318, Mismatches: 49, Indels: 29
0.80 0.12 0.07
Matches are distributed among these distances:
28 35 0.11
29 95 0.30
30 184 0.58
31 4 0.01
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (29 bp):
CCCTAAAACTTCCAAAAATTCCATTTTTA
Found at i:12366 original size:88 final size:87
Alignment explanation
Indices: 12214--12625 Score: 429
Period size: 88 Copynumber: 4.7 Consensus size: 87
12204 CCTTGGAGGT
* *
12214 CCCT-AAACTATCCAAAAATCCCATTTTTACCCCAAAACTTCCAAAAATTACATTTTTGACCCTA
1 CCCTCAAACT-TCCAAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTCCATTTTTGA-CCTA
*
12278 AAACTTCCCAAAATTCCATTTTTGA
64 AAACTTCCAAAAATTCCATTTTT-A
* * * * * * *
12303 TCCTAAAACTTCCTAATATTCCA-TTTTACCCCTAAACTTCCTAAAATTCCATTTTTTATCCTAA
1 CCCTCAAACTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTCCATTTTTGA-CCTAA
*
12367 AACTTCCTAAAATTCCATTTTTA
65 AACTTCCAAAAATTCCATTTTTA
* * * *
12390 CCCCCAAACTTCCAAAAATTTCATTTTTAACCCCAAAACTTCCAAAAATTCCATTCTTAACCTCA
1 CCCTCAAACTTCCAAAAATTCCATTTTT-ACCCCAAAACTTCCAAAAATTCCATTTTTGACCT-A
*
12455 AAACTTCCAAAAACTCCA-TTTTA
64 AAACTTCCAAAAATTCCATTTTTA
* ** * * *
12478 CCCTCAAACTTCCAAAAATTCTATTTTTACCCCCCGAACTTCTAAGAATTCCATTTTTGACCTTG
1 CCCTCAAACTTCCAAAAATTCCATTTTTA-CCCCAAAACTTCCAAAAATTCCATTTTTGACC-TA
*
12543 AAACTTCAAAAAATTCCATTTTTA
64 AAACTTCCAAAAATTCCATTTTTA
* * *** *
12567 CCCTCGAA-TCTCCAAAATTTCCATTTTTGACCTTGAAACTTTCAAAAATTACC-TTTTTG
1 CCCTCAAACT-TCCAAAAATTCCATTTTT-ACCCCAAAACTTCCAAAAATT-CCATTTTTG
12626 CCCCTGGATG
Statistics
Matches: 269, Mismatches: 44, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
87 19 0.07
88 137 0.51
89 105 0.39
90 8 0.03
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (87 bp):
CCCTCAAACTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTCCATTTTTGACCTAAA
ACTTCCAAAAATTCCATTTTTA
Found at i:12487 original size:147 final size:145
Alignment explanation
Indices: 12218--12614 Score: 415
Period size: 147 Copynumber: 2.7 Consensus size: 145
12208 GGAGGTCCCT
* * *
12218 AAACTATCCAAAAATCCCATTTTTACCCCAAAACTTCCAAAAATTACATTTTTGACCCTAAAACT
1 AAACT-TCCTAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTACATTTTT-ACCCCAAAACT
* * * * * *
12283 TCCCAAAATTCCATTTTTGATCCTAAAACTTCCTAATATTCCATTTTACCCCTAAACTTCCTAAA
64 TCCAAAAATTCCATTTTT-AACCTAAAACTTCCAAAAACTCCATTTTACCCCTAAACTTCCAAAA
* *
12348 ATTCCATTTTTTA-TCCTA
128 ATTCCA-TTTTTACCCCCA
* *
12366 AAACTTCCTAAAATTCCATTTTTACCCCCAAACTTCCAAAAATTTCATTTTTAACCCCAAAACTT
1 AAACTTCCTAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTACATTTTT-ACCCCAAAACTT
*
12431 CCAAAAATTCCATTCTTAACCTCAAAACTTCCAAAAACTCCATTTTA-CCCTCAAACTTCCAAAA
65 CCAAAAATTCCATTTTTAACCT-AAAACTTCCAAAAACTCCATTTTACCCCT-AAACTTCCAAAA
* *
12495 ATTCTATTTTTACCCCCC
128 ATTCCATTTTTACCCCCA
* *** * * * *
12513 GAACTT-CTAAGAATTCCATTTTTGACCTTGAAACTTCAAAAAATTCCATTTTTACCCTCGAATC
1 AAACTTCCTAA-AATTCCATTTTT-ACCCCAAAACTTCCAAAAATTACATTTTTACCC-CAAAAC
* * * *
12577 -TCCAAAATTTCCATTTTTGACCTTGAAACTTTCAAAAA
63 TTCCAAAAATTCCATTTTTAACC-TAAAACTTCCAAAAA
12615 TTACCTTTTT
Statistics
Matches: 212, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
146 18 0.08
147 160 0.75
148 34 0.16
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (145 bp):
AAACTTCCTAAAATTCCATTTTTACCCCAAAACTTCCAAAAATTACATTTTTACCCCAAAACTTC
CAAAAATTCCATTTTTAACCTAAAACTTCCAAAAACTCCATTTTACCCCTAAACTTCCAAAAATT
CCATTTTTACCCCCA
Found at i:12597 original size:59 final size:58
Alignment explanation
Indices: 12218--12629 Score: 347
Period size: 59 Copynumber: 7.0 Consensus size: 58
12208 GGAGGTCCCT
* ** * **
12218 AAACTATCCAAAAATCCCATTTTT-ACCCCAAAACTTCCAAAAATTACATTTTTGACCCTA
1 AAACT-TCC-AAAATTCCATTTTTGACCTTAAAACTTCCAAAAATTCCATTTTT-ACCCCG
* * *
12278 AAACTTCCCAAAATTCCATTTTTGATCC-TAAAACTTCCTAATATTCCA-TTTTACCCCT
1 AAACTT-CCAAAATTCCATTTTTGA-CCTTAAAACTTCCAAAAATTCCATTTTTACCCCG
* * *
12336 AAACTTCCTAAAATTCCATTTTTTATCC-TAAAACTTCCTAAAATTCCATTTTTACCCCC
1 AAACTTCC-AAAATTCCATTTTTGA-CCTTAAAACTTCCAAAAATTCCATTTTTACCCCG
* * ** * * *
12395 AAACTTCCAAAAATTTCATTTTTAACCCCAAAACTTCCAAAAATTCCATTCTTAACCTCA
1 AAACTTCC-AAAATTCCATTTTTGACCTTAAAACTTCCAAAAATTCCATT-TTTACCCCG
* * * *
12455 AAACTTCCAAAAACTCCA-TTTT-ACCCTCAAACTTCCAAAAATTCTATTTTTACCCCCCG
1 AAACTTCC-AAAATTCCATTTTTGACCTTAAAACTTCCAAAAATTCCATTTTTA--CCCCG
* * *
12514 -AACTTCTAAGAATTCCATTTTTGACCTTGAAACTTCAAAAAATTCCATTTTTACCCTCG
1 AAACTTCCAA-AATTCCATTTTTGACCTTAAAACTTCCAAAAATTCCATTTTTACCC-CG
* * * *
12573 AATC-TCCAAAATTTCCATTTTTGACCTTGAAACTTTCAAAAATTACC-TTTTTGCCCC
1 AAACTTCCAAAA-TTCCATTTTTGACCTTAAAACTTCCAAAAATT-CCATTTTTACCCC
12630 TGGATGTCCA
Statistics
Matches: 299, Mismatches: 37, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
57 7 0.02
58 90 0.30
59 124 0.41
60 76 0.25
61 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.35
Consensus pattern (58 bp):
AAACTTCCAAAATTCCATTTTTGACCTTAAAACTTCCAAAAATTCCATTTTTACCCCG
Found at i:12640 original size:59 final size:57
Alignment explanation
Indices: 12524--12709 Score: 205
Period size: 59 Copynumber: 3.2 Consensus size: 57
12514 AACTTCTAAG
* *
12524 AATTCCATTTTTGACCTTGAAACTTCAAAAAATT-CCATTTTTACCCTCGAATCTCCAAA
1 AATTCCATTTTTGACCTTGAAACTTC-AAAAATTACC-TTTTTCCCCT-GAATGTCCAAA
* *
12583 ATTTCCATTTTTGACCTTGAAACTTTCAAAAATTACCTTTTTGCCCCTGGATGTCCAAA
1 AATTCCATTTTTGACCTTGAAAC-TTCAAAAATTACCTTTTT-CCCCTGAATGTCCAAA
* * * * * * *
12642 AACTCCATTTTCGACCTCGAAAC-TCTAAAATTACCCTTTTACCCCCGAATGTCTAAA
1 AATTCCATTTTTGACCTTGAAACTTCAAAAATTA-CCTTTTTCCCCTGAATGTCCAAA
12699 AATTCCATTTT
1 AATTCCATTTT
12710 GAAACCCAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
57 32 0.29
58 6 0.06
59 62 0.57
60 9 0.08
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (57 bp):
AATTCCATTTTTGACCTTGAAACTTCAAAAATTACCTTTTTCCCCTGAATGTCCAAA
Found at i:23488 original size:3 final size:3
Alignment explanation
Indices: 23482--23530 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
23472 AATGTGCTAT
* * *
23482 TAA TAA TAT TAA TAA TAA TAA TAT TAA TAA TAA TTAA TAC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
23528 TAA
1 TAA
23531 ATAAAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:24634 original size:29 final size:29
Alignment explanation
Indices: 24578--25144 Score: 410
Period size: 30 Copynumber: 19.1 Consensus size: 29
24568 CCTTGGAGGT
* *
24578 CCCTAAACTATCAAAAAATCCCATTTTTAC
1 CCCTAAACT-TCCAAAAATTCCATTTTTAC
* * *
24608 CCCTAAACTTCCAAAAATTACAATTTTAA
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
* *
24637 CCCTAAAGCTTCCTAAAATTTCATTTTTTAC
1 CCCTAAA-CTTCCAAAAATTCCA-TTTTTAC
*
24668 CCCTAAACTTCCAAAAATTACATTTTTGA-
1 CCCTAAACTTCCAAAAATTCCATTTTT-AC
* * *
24697 -CATGAAACTTCCAAAAATTACATTTTTTAA
1 CCCT-AAACTTCCAAAAATTCCA-TTTTTAC
* *
24727 CCCTAAAAGTTCCCAAAATTCCATTTTTGAC
1 CCCT-AAACTTCCAAAAATTCCATTTTT-AC
* * * * *
24758 CTCGAGACTTCCCAAAATTCTATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
** * *
24787 CCCCGAACTTCCAAAAATTTCATTTTTGAA
1 CCCTAAACTTCCAAAAATTCCATTTTT-AC
* * **
24817 CTCAAAACTTCCAAAAATTTAATTTTTA-
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
* *
24845 CCCTCAAACTTCCAAAAATTCCATTCTTAA
1 CCCT-AAACTTCCAAAAATTCCATTTTTAC
* *
24875 CCCTAAAACTTCAAAAAACTCCATTTTTA-
1 CCCT-AAACTTCCAAAAATTCCATTTTTAC
24904 CCCTCAAACTTCCAAAAATTCCATTTTTAAC
1 CCCT-AAACTTCCAAAAATTCCATTTTT-AC
* * * * *
24935 CTCGAAACTTCGATAAATTCTATTTTTA-
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
* *
24963 TCCTCGAACTTCCAAAAATTCCATTTTTAAC
1 CCCT-AAACTTCCAAAAATTCCATTTTT-AC
* * *
24994 CTCGAAACTTCAAAAAATTCCATTTTTACC
1 CCCTAAACTTCCAAAAATTCCATTTTTA-C
** * *
25024 CCCCGAAC-TCTCAAGAATTCTATTTTTGAC
1 CCCTAAACTTC-CAAAAATTCCATTTTT-AC
* *
25054 CTCGAAACTTCCAAAAATTCCATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
* * * * * * *
25083 TCTTGAACCTCTAAAATTTCCATTTTTAA
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
* *
25112 CCCTAAAACTTTCAAAAATTACC-TTTTTGC
1 CCCT-AAACTTCCAAAAATT-CCATTTTTAC
25142 CCC
1 CCC
25145 CGAATGTCTA
Statistics
Matches: 422, Mismatches: 93, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
28 5 0.01
29 162 0.38
30 215 0.51
31 40 0.09
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAC
Found at i:24693 original size:59 final size:61
Alignment explanation
Indices: 24601--25131 Score: 413
Period size: 59 Copynumber: 8.9 Consensus size: 61
24591 AAAAATCCCA
* * * *
24601 TTTTTACCCCT-AAACTTCCAAAAATTACAATTTTAACCCTAAAGCTTCCTAAAATTTCAT
1 TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTTCAT
* * * * *
24661 TTTTTACCCCT-AAACTTCCAAAAATTACATTTTTGA-CATGAAACTTCCAAAAATTACAT
1 TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTTCAT
* * * * * * * *
24720 TTTTTAACCCTAAAAGTTCCCAAAATTCCATTTTTGA-CCTCGAGACTTCCCAAAA-TTC-T
1 TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCT-AAAACTTCCAAAAATTTCAT
* * * *
24779 ATTTTTACCCC-CGAACTTCCAAAAATTTCATTTTTGAACTC-AAAACTTCCAAAAATTT-AA
1 -TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTT-AACCCTAAAACTTCCAAAAATTTCAT
* * * *
24839 TTTTTA-CCCTCAAACTTCCAAAAATTCCATTCTTAACCCTAAAACTTCAAAAAACTCCA-
1 TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTTCAT
* * *
24898 TTTTTA-CCCTCAAACTTCCAAAAATTCCATTTTTAA-CCTCGAAACTTCGATAAA-TTC-T
1 TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCT-AAAACTTCCAAAAATTTCAT
* * * * *
24956 ATTTTTA-TCCTCGAACTTCCAAAAATTCCATTTTTAA-CCTCGAAACTTCAAAAAATTCCA-
1 -TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCT-AAAACTTCCAAAAATTTCAT
* * * * * * *
25016 TTTTTACCCCCCGAAC-TCTCAAGAATTCTATTTTTGA-CCTCGAAACTTCCAAAAATTCCA-
1 TTTTTACCCCTCAAACTTC-CAAAAATTCCATTTTTAACCCT-AAAACTTCCAAAAATTTCAT
* ** * * * *
25076 TTTTTA-CTCTTGAACCTCTAAAATTTCCATTTTTAACCCTAAAACTTTCAAAAATT
1 TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATT
25132 ACCTTTTTGC
Statistics
Matches: 392, Mismatches: 60, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
58 12 0.03
59 237 0.60
60 130 0.33
61 13 0.03
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (61 bp):
TTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATTTCAT
Found at i:24754 original size:89 final size:89
Alignment explanation
Indices: 24578--25131 Score: 445
Period size: 89 Copynumber: 6.2 Consensus size: 89
24568 CCTTGGAGGT
* * * * *
24578 CCCTAAACTATCAAAAAATCCCATTTTT-ACCCCT-AAACTTCCAAAAATTACAATTTTAACCCT
1 CCCTAAACT-TCCAAAAATTCTATTTTTGA-CCCTGAAACTTCCAAAAATTCCATTTTTAACCCT
* * *
24641 AAAGCTTCCTAAAATTTCATTTTTTAC
64 AAAACTTCCAAAAATTCCA-TTTTTAC
* *
24668 CCCTAAACTTCCAAAAATTAC-ATTTTTGA-CATGAAACTTCCAAAAATTACATTTTTTAACCCT
1 CCCTAAACTTCCAAAAATT-CTATTTTTGACCCTGAAACTTCCAAAAATTCCA-TTTTTAACCCT
* *
24731 AAAAGTTCCCAAAATTCCATTTTTGAC
64 AAAACTTCCAAAAATTCCATTTTT-AC
* * * * * * *
24758 CTCGAGACTTCCCAAAATTCTATTTTT-ACCCCCG-AACTTCCAAAAATTTCATTTTTGAACTC-
1 CCCTAAACTTCCAAAAATTCTATTTTTGA-CCCTGAAACTTCCAAAAATTCCATTTTT-AACCCT
**
24820 AAAACTTCCAAAAATTTAATTTTTA-
64 AAAACTTCCAAAAATTCCATTTTTAC
* * * * * * *
24845 CCCTCAAACTTCCAAAAATTCCATTCTTAACCCTAAAACTTCAAAAAACTCCATTTTT-ACCCTC
1 CCCT-AAACTTCCAAAAATTCTATTTTTGACCCTGAAACTTCCAAAAATTCCATTTTTAACCCTA
24909 AAACTTCCAAAAATTCCATTTTTAAC
65 AAACTTCCAAAAATTCCATTTTT-AC
* * * * *
24935 CTCGAAACTTCGATAAATTCTATTTTT-ATCCTCG-AACTTCCAAAAATTCCATTTTTAA-CCTC
1 CCCTAAACTTCCAAAAATTCTATTTTTGACCCT-GAAACTTCCAAAAATTCCATTTTTAACCCT-
* *
24997 GAAACTTCAAAAAATTCCATTTTTACC
64 AAAACTTCCAAAAATTCCATTTTTA-C
** * *
25024 CCCCGAAC-TCTCAAGAATTCTATTTTTGA-CCTCGAAACTTCCAAAAATTCCATTTTT-ACTCT
1 CCCTAAACTTC-CAAAAATTCTATTTTTGACCCT-GAAACTTCCAAAAATTCCATTTTTAACCCT
** * * * *
25086 TGAACCTCTAAAATTTCCATTTTTAA
64 AAAACTTCCAAAAATTCCATTTTTAC
*
25112 CCCTAAAACTTTCAAAAATT
1 CCCT-AAACTTCCAAAAATT
25132 ACCTTTTTGC
Statistics
Matches: 375, Mismatches: 64, Indels: 51
0.77 0.13 0.10
Matches are distributed among these distances:
87 5 0.01
88 79 0.21
89 182 0.49
90 107 0.29
91 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (89 bp):
CCCTAAACTTCCAAAAATTCTATTTTTGACCCTGAAACTTCCAAAAATTCCATTTTTAACCCTAA
AACTTCCAAAAATTCCATTTTTAC
Found at i:25139 original size:59 final size:58
Alignment explanation
Indices: 24859--25262 Score: 192
Period size: 59 Copynumber: 6.9 Consensus size: 58
24849 CAAACTTCCA
* * ** *
24859 AAAATTCCATTCTTAACCCTAAAAC-TTCAAAAAACT-CCATTTTTACCCTCAAACT-TCCA
1 AAAATTCCATTTTTAACCCTAAAACTTTC-AAAAATTACC-TTTTTACCCTTGAA-TGT-CT
* * * * * *
24918 AAAATTCCATTTTTAA-CCTCGAAAC-TTCGATAAATT-CTATTTTTATCCTCGAACT-TCCA
1 AAAATTCCATTTTTAACCCT-AAAACTTTC-AAAAATTAC-CTTTTTACCCTTGAA-TGT-CT
* ** *
24977 AAAATTCCATTTTTAA-CCTCGAAAC-TTCAAAAAATT-CCATTTTTACCCCCCGAA-CTCT
1 AAAATTCCATTTTTAACCCT-AAAACTTTC-AAAAATTACC-TTTTTA-CCCTTGAATGTCT
* * * * * **
25035 CAAGAATTCTATTTTTGA-CCTCGAAACTTCCAAAAATT-CCATTTTTACTCTTGAACCTCT
1 -AA-AATTCCATTTTTAACCCT-AAAACTTTCAAAAATTACC-TTTTTACCCTTGAATGTCT
* **
25095 AAAATTTCCATTTTTAACCCTAAAACTTTCAAAAATTACCTTTTTGCCCCCGAATGTCT
1 AAAA-TTCCATTTTTAACCCTAAAACTTTCAAAAATTACCTTTTTACCCTTGAATGTCT
* * * * * *
25154 AAAAACTCCGTTTTTAA-CCTCGAAACTCTC-AAAATTACC-ATTTACCCTTGAATGTTT
1 -AAAATTCCATTTTTAACCCT-AAAACTTTCAAAAATTACCTTTTTACCCTTGAATGTCT
** * * *
25211 AAAATTCCATTTTTAACCCTAAATTTTTCCAAAATTACCATTTTGCCCTTGA
1 AAAATTCCATTTTTAACCCTAAAACTTTCAAAAATTACCTTTTTACCCTTGA
25263 GAACCTAAAA
Statistics
Matches: 281, Mismatches: 47, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
56 19 0.07
57 25 0.09
58 28 0.10
59 151 0.54
60 56 0.20
61 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAATTCCATTTTTAACCCTAAAACTTTCAAAAATTACCTTTTTACCCTTGAATGTCT
Found at i:25244 original size:57 final size:57
Alignment explanation
Indices: 25094--25262 Score: 171
Period size: 57 Copynumber: 2.9 Consensus size: 57
25084 CTTGAACCTC
* * **
25094 TAAAATTTCCATTTTTAACCCTAAAACTTTCAAAAATTACCTTTTTGCCCCCGAATGTCT
1 TAAAA-TTCCATTTTTAACCCT-AAACTTTCCAAAATTACC-ATTTGCCCTTGAATGTCT
* * * * * *
25154 AAAAACTCCGTTTTTAACCTCGAAACTCT-CAAAATTACCATTTACCCTTGAATGT-T
1 TAAAATTCCATTTTTAACC-CTAAACTTTCCAAAATTACCATTTGCCCTTGAATGTCT
*
25210 TAAAATTCCATTTTTAACCCTAAATTTTTCCAAAATTACCATTTTGCCCTTGA
1 TAAAATTCCATTTTTAACCCTAAA-CTTTCCAAAATTACCA-TTTGCCCTTGA
25263 GAACCTAAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
55 4 0.05
56 19 0.22
57 23 0.26
58 19 0.22
59 18 0.20
60 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (57 bp):
TAAAATTCCATTTTTAACCCTAAACTTTCCAAAATTACCATTTGCCCTTGAATGTCT
Found at i:25272 original size:115 final size:117
Alignment explanation
Indices: 24821--25258 Score: 306
Period size: 118 Copynumber: 3.7 Consensus size: 117
24811 TTTGAACTCA
** ** * * * *
24821 AAACTTCCAAAAATTTAATTTTTACCCTCAAACTTCCAAAAATTCCATTCTTAACCCTAAAAC-T
1 AAACTTCCAAAAATTCCA-TTTTACCCTTGAACCTCTAAAATTTCCATTTTTAACCCTAAAACTT
* * * * * * *
24885 TCAAAAAACT-CCATTTTTACCCTCAAACTTCC-AAAAATTCCATTTTTAACCTCG
65 TC-AAAAATTACCA-TTTTGCCCCCGAA-TACCTAAAAACTCCGTTTTTAACCTCG
* * * * * * * * *
24939 AAACTTCGATAAATTCTATTTTTATCCTCGAACTTCCAAAAATTCCATTTTTAA-CCTCGAAAC-
1 AAACTTCCAAAAATTCCA-TTTTACCCTTGAACCTCTAAAATTTCCATTTTTAACCCT-AAAACT
* * * ** *
25002 TTCAAAAAATT-CCATTTTTACCCCCCG-A-ACTCTCAAGAATTCTATTTTTGACCTCG
64 TTC-AAAAATTACCA-TTTT-GCCCCCGAATAC-CT-AAAAACTCCGTTTTTAACCTCG
*
25058 AAACTTCCAAAAATTCCATTTTTACTCTTGAACCTCTAAAATTTCCATTTTTAACCCTAAAACTT
1 AAACTTCCAAAAATTCCA-TTTTACCCTTGAACCTCTAAAATTTCCATTTTTAACCCTAAAACTT
* **
25123 TCAAAAATTACCTTTTTGCCCCCGAATGTCTAAAAACTCCGTTTTTAACCTCG
65 TCAAAAATTACCATTTTGCCCCCGAATACCTAAAAACTCCGTTTTTAACCTCG
** * **
25176 AAAC-TCTC-AAAATTACCA-TTTACCCTTGAATGTTTAAAA-TTCCATTTTTAACCCTAAATTT
1 AAACTTC-CAAAAATT-CCATTTTACCCTTGAACCTCTAAAATTTCCATTTTTAACCCTAAAACT
*
25237 TTCCAAAATTACCATTTTGCCC
64 TTCAAAAATTACCATTTTGCCC
25259 TTGAGAACCT
Statistics
Matches: 265, Mismatches: 43, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
115 40 0.15
116 18 0.07
117 12 0.05
118 101 0.38
119 86 0.32
120 8 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (117 bp):
AAACTTCCAAAAATTCCATTTTACCCTTGAACCTCTAAAATTTCCATTTTTAACCCTAAAACTTT
CAAAAATTACCATTTTGCCCCCGAATACCTAAAAACTCCGTTTTTAACCTCG
Found at i:28310 original size:4 final size:4
Alignment explanation
Indices: 28301--28341 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
28291 AACGGGTATT
* *
28301 GAAA GAAA GAAA TAAA GAAAA GAAA GAAA GAAA GAAG GAAA
1 GAAA GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA
28342 AAGGAAGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:28324 original size:17 final size:17
Alignment explanation
Indices: 28302--28336 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28292 ACGGGTATTG
*
28302 AAAGAAAGAAATAAAGA
1 AAAGAAAGAAAGAAAGA
28319 AAAGAAAGAAAGAAAGA
1 AAAGAAAGAAAGAAAGA
28336 A
1 A
28337 GGAAAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (17 bp):
AAAGAAAGAAAGAAAGA
Found at i:28327 original size:21 final size:21
Alignment explanation
Indices: 28301--28360 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
28291 AACGGGTATT
*
28301 GAAAGAAAGAAATAAAGAAAA
1 GAAAGAAAGAAAGAAAGAAAA
*
28322 GAAAGAAAGAAAGAAGGAAAAA
1 GAAAGAAAGAAAGAAAG-AAAA
* * *
28344 GGAAGAAGGAGAGAAAG
1 GAAAGAAAGAAAGAAAG
28361 CTAATGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (21 bp):
GAAAGAAAGAAAGAAAGAAAA
Found at i:33805 original size:16 final size:16
Alignment explanation
Indices: 33760--33807 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
33750 AAATACTCTA
*
33760 AATTAATTACCAAAAT
1 AATTAATTAACAAAAT
33776 -A-TAA-TATA-AAAAT
1 AATTAATTA-ACAAAAT
33789 AATTAATTAACAAAAT
1 AATTAATTAACAAAAT
33805 AAT
1 AAT
33808 ATTCCCATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
15 5 0.19
16 10 0.38
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAATTAACAAAAT
Found at i:35816 original size:45 final size:45
Alignment explanation
Indices: 35741--35832 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
35731 GCCTAGCTCA
* *
35741 TCAAGCCAAAGATATCAGTCTTAGTCTGACGAGCCACCGCAATAC
1 TCAAGCCAAAGATATCAGCCTTAGTCTGACGAGCCACCACAATAC
* *
35786 TCAAGCCAAGGATATCAGCCTCT-GTTTGACGAGCCACCACAATAC
1 TCAAGCCAAAGATATCAGCCT-TAGTCTGACGAGCCACCACAATAC
35831 TC
1 TC
35833 TACTCCTCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (45 bp):
TCAAGCCAAAGATATCAGCCTTAGTCTGACGAGCCACCACAATAC
Found at i:36108 original size:7 final size:7
Alignment explanation
Indices: 36096--36155 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
36086 TTCATACTTA
36096 TAAACCC
1 TAAACCC
*
36103 TAAACCT
1 TAAACCC
* *
36110 TAAATCT
1 TAAACCC
*
36117 TAAACCA
1 TAAACCC
36124 TAAACCC
1 TAAACCC
*
36131 TAAACCT
1 TAAACCC
*
36138 TAAATCC
1 TAAACCC
*
36145 TTAACCC
1 TAAACCC
36152 TAAA
1 TAAA
36156 TTGGAAACCA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCC
Found at i:36120 original size:21 final size:21
Alignment explanation
Indices: 36096--36156 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
36086 TTCATACTTA
*
36096 TAAACCCTAAACCTTAAATCT
1 TAAACCCTAAACCCTAAATCT
* *
36117 TAAACCATAAACCCTAAACCT
1 TAAACCCTAAACCCTAAATCT
* *
36138 TAAATCCTTAACCCTAAAT
1 TAAACCCTAAACCCTAAAT
36157 TGGAAACCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAATCT
Found at i:36233 original size:15 final size:14
Alignment explanation
Indices: 36198--36240 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
36188 AACCCTTTTC
*
36198 TTCAAAACCTTAAA
1 TTCAAAACCTAAAA
*
36212 TTTAAAACCATAAAA
1 TTCAAAACC-TAAAA
36227 TTCAAAACTCTAAA
1 TTCAAAAC-CTAAA
36241 CCCTTAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 8 0.33
15 15 0.62
16 1 0.04
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (14 bp):
TTCAAAACCTAAAA
Found at i:39104 original size:6 final size:6
Alignment explanation
Indices: 39077--39121 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
39067 ACAATTCATA
* * *
39077 TCACTT TCAGTT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
39122 ATTTTGATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:47252 original size:24 final size:24
Alignment explanation
Indices: 47225--47271 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
47215 CACCATACAC
47225 GGAGTTGGATCTTCATTTTCTACT
1 GGAGTTGGATCTTCATTTTCTACT
47249 GGAGTTGGATCTTCATTTTCTAC
1 GGAGTTGGATCTTCATTTTCTAC
47272 AAGTTCCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (24 bp):
GGAGTTGGATCTTCATTTTCTACT
Found at i:48316 original size:26 final size:24
Alignment explanation
Indices: 48277--48370 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 24
48267 CGAAGTACTT
*
48277 AACAGAAGCACATAAGTGTTGGGGGA
1 AACAGAAGCACATAAGTGCT--GGGA
*
48303 AACAGAAGCGCATAAGTGCTGGGA
1 AACAGAAGCACATAAGTGCTGGGA
*
48327 AACAGAAGGCACACACAGTGCT--G-
1 AACAGAA-GCACATA-AGTGCTGGGA
*
48350 AACAGAAGCACACACAGTGCT
1 AACAGAAGCACATA-AGTGCT
48371 AAACAGTAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
22 14 0.23
23 7 0.11
24 12 0.19
25 5 0.08
26 24 0.39
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (24 bp):
AACAGAAGCACATAAGTGCTGGGA
Found at i:48363 original size:22 final size:22
Alignment explanation
Indices: 48326--48381 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
48316 AAGTGCTGGG
48326 AAACAGAAGGCACACACAGTGCT
1 AAACAGAA-GCACACACAGTGCT
*
48349 GAACAGAAGCACACACAGTGCT
1 AAACAGAAGCACACACAGTGCT
48371 AAACAGTAAGC
1 AAACAG-AAGC
48382 GTGCTAGCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.45, C:0.25, G:0.21, T:0.09
Consensus pattern (22 bp):
AAACAGAAGCACACACAGTGCT
Found at i:50526 original size:36 final size:35
Alignment explanation
Indices: 50478--50550 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
50468 TTATTTTATT
*
50478 AAATTAATAATTTTTCAATATTACTTT-AGTCAAATA
1 AAATAAATAATTTTTCAATATTA-TTTGAGT-AAATA
**
50514 AAATAAATAATTTTTGTATATTATTTGAGTAAATA
1 AAATAAATAATTTTTCAATATTATTTGAGTAAATA
50549 AA
1 AA
50551 TATTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 10 0.30
36 23 0.70
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (35 bp):
AAATAAATAATTTTTCAATATTATTTGAGTAAATA
Found at i:53439 original size:29 final size:29
Alignment explanation
Indices: 53397--53628 Score: 245
Period size: 29 Copynumber: 8.0 Consensus size: 29
53387 AGAAAGTCCC
*
53397 CGAACTTCCAAAAATCACATTTTGACACT
1 CGAACTTCCAAAAATCACATTTTGACCCT
*
53426 CGAACTTCCAAAAATTACATTTTGACCCT
1 CGAACTTCCAAAAATCACATTTTGACCCT
* *
53455 CGAACTTCTCAAAAATTACATTTTTATCCCT
1 CGAACTTC-CAAAAATCACATTTTGA-CCCT
* * *
53486 -AAATTTCCAAAAATCACATTTTTACCCT
1 CGAACTTCCAAAAATCACATTTTGACCCT
* * *
53514 CAAACTTCCAAAAATTACATTTTTACCCT
1 CGAACTTCCAAAAATCACATTTTGACCCT
* *
53543 CGAACTTCTAAAAATCACAATTT-ACCCT
1 CGAACTTCCAAAAATCACATTTTGACCCT
* * * *
53571 TGAACTTCTTAAAAATTAAATTTTTG-CCCT
1 CGAACTTC-CAAAAATCACA-TTTTGACCCT
* *
53601 CGAACTTCCAAAAATCAAATTTTTACCC
1 CGAACTTCCAAAAATCACATTTTGACCC
53629 CAAACTTTTC
Statistics
Matches: 176, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
28 20 0.11
29 117 0.66
30 35 0.20
31 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
CGAACTTCCAAAAATCACATTTTGACCCT
Found at i:53551 original size:88 final size:87
Alignment explanation
Indices: 53402--53672 Score: 323
Period size: 88 Copynumber: 3.1 Consensus size: 87
53392 GTCCCCGAAC
* * *
53402 TTCCAAAAATCACATTTTGACACTCGAACTTCCAAAAATTACATTTTGACCCTCGAACTTCTCAA
1 TTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTACCCTCGAACTTCTCAA
53467 AAATTACATTTTTATCCCTAAAT
66 AAATTACATTTTTA-CCCTAAAT
*
53490 TTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTACCCTCGAACTTCT-AA
1 TTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTACCCTCGAACTTCTCAA
* * * *
53554 AAATCACA-ATTTACCCTTGAAC
66 AAATTACATTTTTACCC-TAAAT
* * * * * * * * *
53576 TTCTTAAAAATTAAATTTTTGCCCTCGAACTTCCAAAAATCAAATTTTTACCC-CAAACTTTTCT
1 TTC-CAAAAATCACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTACCCTCGAACTTCTCA
53640 AAAATTACATTTTTACCCCTAAACT
65 AAAATTACATTTTTA-CCCTAAA-T
53665 TTCCAAAA
1 TTCCAAAA
53673 TTATGTTTTA
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
85 3 0.02
86 17 0.11
87 59 0.38
88 69 0.45
89 6 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (87 bp):
TTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTACCCTCGAACTTCTCAA
AAATTACATTTTTACCCTAAAT
Found at i:53556 original size:58 final size:58
Alignment explanation
Indices: 53399--53657 Score: 299
Period size: 58 Copynumber: 4.4 Consensus size: 58
53389 AAAGTCCCCG
* * * * * *
53399 AACTTCCAAAAATCACATTTTGACACTCGAACTTCCAAAAATTACATTTTGACCCTCG
1 AACTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCTCA
* *
53457 AACTTCTCAAAAATTACATTTTTATCCCT-AAATTTCCAAAAATCACATTTTTACCCTCA
1 AACTTC-CAAAAATTACATTTTTA-CCCTCGAACTTCCAAAAATCACATTTTTACCCTCA
* * **
53516 AACTTCCAAAAATTACATTTTTACCCTCGAACTTCTAAAAATCACA-ATTTACCCTTG
1 AACTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCTCA
* * * *
53573 AACTTCTTAAAAATTAAATTTTTGCCCTCGAACTTCCAAAAATCAAATTTTTACCC-CA
1 AACTTC-CAAAAATTACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCTCA
* *
53631 AACTTTTCTAAAATTACATTTTTACCC
1 AAC-TTCCAAAAATTACATTTTTACCC
53658 CTAAACTTTC
Statistics
Matches: 168, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
57 18 0.11
58 92 0.55
59 55 0.33
60 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (58 bp):
AACTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCTCA
Found at i:53665 original size:116 final size:117
Alignment explanation
Indices: 53399--53672 Score: 331
Period size: 116 Copynumber: 2.3 Consensus size: 117
53389 AAAGTCCCCG
* * * * * *
53399 AACTTCCAAAAATCACATTTTGACACTCGAACTTCCAAAAATTACATTTTGACCCTCGAACTTCT
1 AACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATCACAATTTGACCCTCGAACTTCT
* * * *
53464 CAAAAATTACATTTTTATCCCTAAATTTCCAAAAATCACATTTTTACCCTCA
66 CAAAAATTAAATTTTTAGCCCTAAACTTCCAAAAATCAAATTTTTACCCTCA
* * *
53516 AACTTCCAAAAATTACATTTTTACCCTCGAACTTCTAAAAATCACAATTT-ACCCTTGAACTTCT
1 AACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATCACAATTTGACCCTCGAACTTCT
* *
53580 TAAAAATTAAATTTTT-GCCCTCGAACTTCCAAAAATCAAATTTTTACCC-CA
66 CAAAAATTAAATTTTTAGCCCT-AAACTTCCAAAAATCAAATTTTTACCCTCA
* *
53631 AACTTTTCTAAAATTACATTTTTACCC-CTAAACTTTCCAAAA
1 AAC-TTCCAAAAATTACATTTTTACCCTC-AAAC-TTCCAAAA
53673 TTATGTTTTA
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
115 10 0.07
116 75 0.55
117 51 0.38
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (117 bp):
AACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATCACAATTTGACCCTCGAACTTCT
CAAAAATTAAATTTTTAGCCCTAAACTTCCAAAAATCAAATTTTTACCCTCA
Found at i:53691 original size:28 final size:28
Alignment explanation
Indices: 53431--53692 Score: 156
Period size: 29 Copynumber: 9.0 Consensus size: 28
53421 ACACTCGAAC
* *
53431 TTCCAAAAATTACATTTTGACCCTCGAACT
1 TTCC-AAAATTACATTTTTACCC-CAAACT
* *
53461 TCTCAAAAATTACATTTTTATCCCTAAA-T
1 T-TCCAAAATTACATTTTTA-CCCCAAACT
*
53490 TTCCAAAAATCACATTTTTACCCTCAAAC-
1 TTCC-AAAATTACATTTTTACCC-CAAACT
*
53519 TTCCAAAAATTACATTTTTACCCTCGAAC-
1 TTCC-AAAATTACATTTTTACCC-CAAACT
* * * **
53548 TTCTAAAAATCACA-ATTTACCCTTGAACT
1 TTC-CAAAATTACATTTTTACCC-CAAACT
** * * *
53577 TCTTAAAAATTAAATTTTTGCCCTCGAAC-
1 T-TCCAAAATTACATTTTTACCC-CAAACT
* *
53606 TTCCAAAAATCAAATTTTTACCCCAAACTT
1 TTCC-AAAATTACATTTTTACCCCAAAC-T
*
53636 TTCTAAAATTACATTTTTACCCCTAAACT
1 TTCCAAAATTACATTTTTACCCC-AAACT
** *
53665 TTCCAAAATTATGTTTTAACCCCAAACT
1 TTCCAAAATTACATTTTTACCCCAAACT
53693 CTTTGAAACT
Statistics
Matches: 188, Mismatches: 31, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
28 27 0.14
29 120 0.64
30 36 0.19
31 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (28 bp):
TTCCAAAATTACATTTTTACCCCAAACT
Found at i:53710 original size:29 final size:27
Alignment explanation
Indices: 53619--53716 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 27
53609 CAAAAATCAA
53619 ATTTTTACCCCAAACTTTTCTAAAATTAC
1 ATTTTTACCCCAAACTTTTC-AAAATT-C
*
53648 ATTTTTACCCCTAAACTTTCCAAAATT-
1 ATTTTTACCCC-AAACTTTTCAAAATTC
* *
53675 ATGTTTTAACCCCAAACTCTTTGAAACTTC
1 AT-TTTT-ACCCCAAACT-TTTCAAAATTC
53705 ATTTTTGACCCC
1 ATTTTT-ACCCC
53717 TTTTTTCTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
27 2 0.03
28 9 0.15
29 38 0.64
30 10 0.17
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.40
Consensus pattern (27 bp):
ATTTTTACCCCAAACTTTTCAAAATTC
Found at i:53831 original size:15 final size:15
Alignment explanation
Indices: 53811--53855 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
53801 TGATTCATAT
*
53811 TTTATTTTTCTTATA
1 TTTATTTTTCGTATA
53826 TTTA-TTTTCGTATA
1 TTTATTTTTCGTATA
*
53840 TTTATTCATTCGTATA
1 TTTATT-TTTCGTATA
53856 ATTGTTCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.50
15 5 0.19
16 8 0.31
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (15 bp):
TTTATTTTTCGTATA
Found at i:63146 original size:8 final size:8
Alignment explanation
Indices: 63129--63162 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
63119 CTTGAAACCC
63129 AAGAAAAA
1 AAGAAAAA
63137 AAGGAAAAA
1 AA-GAAAAA
63146 AAGAAAAGA
1 AAGAAAA-A
63155 AAGAAAAA
1 AAGAAAAA
63163 TTCAAGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:63151 original size:17 final size:17
Alignment explanation
Indices: 63129--63162 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63119 CTTGAAACCC
63129 AAGAAAA-AAAGGAAAAA
1 AAGAAAAGAAA-GAAAAA
63146 AAGAAAAGAAAGAAAAA
1 AAGAAAAGAAAGAAAAA
63163 TTCAAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAAGAAAAA
Found at i:64078 original size:19 final size:19
Alignment explanation
Indices: 64049--64103 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
64039 AATAAAATAA
64049 AAAAAAGGAAAGAGAAAAAG
1 AAAAAA-GAAAGAGAAAAAG
*
64069 AAAAAAGAAAGA-AAAAAT
1 AAAAAAGAAAGAGAAAAAG
*
64087 AAAAAGGAAA-AGAAAAA
1 AAAAAAGAAAGAGAAAAA
64104 AGAAGGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 1 0.03
18 19 0.59
19 6 0.19
20 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAGAGAAAAAG
Found at i:64081 original size:17 final size:17
Alignment explanation
Indices: 64061--64119 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
64051 AAAAGGAAAG
64061 AGAAAAAGAAAAAAGAA
1 AGAAAAAGAAAAAAGAA
64078 AGAAAAA-ATAAAAAG--
1 AGAAAAAGA-AAAAAGAA
64093 -G-AAAAGAAAAAAGAA
1 AGAAAAAGAAAAAAGAA
*
64108 GGAAAAAGAAAA
1 AGAAAAAGAAAA
64120 GGAGAGGTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.28
14 2 0.06
16 2 0.06
17 22 0.61
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AGAAAAAGAAAAAAGAA
Found at i:64104 original size:19 final size:18
Alignment explanation
Indices: 64047--64104 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 18
64037 AAAATAAAAT
64047 AAAAAAAAGGAAAGAGAAA
1 AAAAAAAAGGAAA-AGAAA
64066 AAGAAAAAA-G-AAAGAAA
1 AA-AAAAAAGGAAAAGAAA
64083 AAATAAAAAGGAAAAGAAA
1 AAA-AAAAAGGAAAAGAAA
64102 AAA
1 AAA
64105 GAAGGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.34
18 3 0.09
19 13 0.37
20 6 0.17
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGGAAAAGAAA
Found at i:65289 original size:99 final size:99
Alignment explanation
Indices: 65113--65738 Score: 370
Period size: 99 Copynumber: 6.3 Consensus size: 99
65103 CCCAGCACCA
* * * * * * * *
65113 TGAAGATATGAAGGGAAATGTTAAGGCTGCAA-GGACGAATCTGGCACCTTAGAAGATGTGATGG
1 TGAAGATATGAAGGGAAAGGTGAAGGCCGCAATGG-CGAACCCGGTACCTTAGAAGATATGAAGG
* ** * * *
65177 AAAAAATTAAGGCCGTAACGATGAATCTGGTACCT
65 GAAAGGTTGAGGCCGCAACGACGAATCTGGTACCT
* *
65212 TGAAGATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAAAAGATATGAAGGG
1 TGAAGATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATATGAAGGG
* * * *
65277 AAAGGTTGAGGCCGCAATGGCGAACCCGGTACCT
66 AAAGGTTGAGGCCGCAACGACGAATCTGGTACCT
* * * * * * * *
65311 TAGAAGATGT-AATGGG-AAGGATTG-AGGCCACAACGGTGAATCTGGTACCAT-GGAGATATGA
1 T-GAAGATATGAA-GGGAAAGG--TGAAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATATGA
* * * *
65372 AGGGAAAGG-TGAAGGCCGCAATGACAAACCCGGTACCT
62 AGGGAAAGGTTG-AGGCCGCAACGACGAATCTGGTACCT
* * * * * *
65410 TAGAAGATGTGATA-GGAAAGATTAAGGCCGCAATGGCGAATCTGGTACCATA-AAGATATGAAG
1 T-GAAGATATGA-AGGGAAAGGTGAAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATATGAAG
* * * *
65473 GGAAAGGTTGAGGCTGCGACGGCGAA-CTCAGTACCT
64 GGAAAGGTTGAGGCCGCAACGACGAATCT-GGTACCT
* * * ** * *
65509 TAGAAGATGT-AATGAGAAAGGTTAAGGCCATAATGGCGAACCC--AACGTCTTAGAAGATGTGA
1 T-GAAGATATGAA-GGGAAAGGTGAAGGCCGCAATGGCGAACCCGGTAC--CTTAGAAGATATGA
65571 TA-GG-AAGGATTGAGGCCGCAACGACGAATCTGGTACCAT
62 -AGGGAAAGG-TTGAGGCCGCAACGACGAATCTGGTACC-T
* * * * * ** * *
65610 T-AAGATATGAAGGGAATGGT-AGGGGCTGGAACGATGAACCCGGTACCTTAGAAGATGTGATGG
1 TGAAGATATGAAGGGAAAGGTGA-AGGCCGCAATGGCGAACCCGGTACCTTAGAAGATATGAAGG
* ** * *
65673 G-AAGGATTGAGGCTGCAACGGTGAATCTTGTACCA
65 GAAAGG-TTGAGGCCGCAACGACGAATCTGGTACCT
* *
65708 TGAAAATATGAACGGAAAGGTTGAA-GCCGCA
1 TGAAGATATGAAGGGAAAGG-TGAAGGCCGCA
65739 GCGGTGAACT
Statistics
Matches: 416, Mismatches: 81, Indels: 60
0.75 0.15 0.11
Matches are distributed among these distances:
97 3 0.01
98 7 0.02
99 323 0.78
100 72 0.17
101 11 0.03
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (99 bp):
TGAAGATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATATGAAGGG
AAAGGTTGAGGCCGCAACGACGAATCTGGTACCT
Found at i:65318 original size:149 final size:149
Alignment explanation
Indices: 65069--65466 Score: 473
Period size: 149 Copynumber: 2.7 Consensus size: 149
65059 GAACATAAAT
* * * * * * *
65069 ATATGAAGGGAAAGATTAAGGTCGTAATGGCGAACCC-AGCACCAT-GAAGATATGAAGGGAAAT
1 ATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGA-TACCTTAGAAGATATGAAGGGAAAG
* * * **
65132 GTTAAGGCTGCAA-GGACGAATCTGGCACCTTAGAAGATGTGATGGAAAAAATTAAGGCCGTAAC
65 GTTAAGGCCGCAATGG-CGAATCTGGTACCTTAGAAGATGTAATGGAAAAAATTAAGGCCACAAC
*
65196 GATGAATCTGGTACCTTGAAG
129 GATGAATCTGGTACCATGAAG
*
65217 ATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAAAAGATATGAAGGGAAAGG
1 ATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAAGG
* * * * ** * *
65282 TTGAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATGTAATGGGAAGGATTGAGGCCACAACGG
66 TTAAGGCCGCAATGGCGAATCTGGTACCTTAGAAGATGTAATGGAAAAAATTAAGGCCACAACGA
*
65347 TGAATCTGGTACCATGGAG
131 TGAATCTGGTACCATGAAG
* * * *
65366 ATATGAAGGGAAAGGTGAAGGCCGCAATGACAAACCCGGTACCTTAGAAGATGTGATA-GGAAAG
1 ATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGA-AGGGAAAG
* *
65430 ATTAAGGCCGCAATGGCGAATCTGGTACCATA-AAGAT
65 GTTAAGGCCGCAATGGCGAATCTGGTACCTTAGAAGAT
65467 ATGAAGGGAA
Statistics
Matches: 213, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
148 42 0.20
149 168 0.79
150 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (149 bp):
ATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAAGG
TTAAGGCCGCAATGGCGAATCTGGTACCTTAGAAGATGTAATGGAAAAAATTAAGGCCACAACGA
TGAATCTGGTACCATGAAG
Found at i:65528 original size:149 final size:148
Alignment explanation
Indices: 65205--65669 Score: 462
Period size: 149 Copynumber: 3.1 Consensus size: 148
65195 CGATGAATCT
* * *
65205 GGTACCTT-GAAGATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAAAAGAT
1 GGTACCTTAGAAGATGTGAAGAGAAAGGTGAAGGCCGCAATGGCGAACCCG-TACCTTAGAAGAT
* * * * * *
65269 ATGA-AGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCTTAGAAGATGT-AATGGG-AAGG
65 GTGATA-GGAAAGATTGAGGCCGCAATGGCGAATCTGGTACCATA-AAGATATGAA-GGGAAAGG
** *
65331 ATTGAGGCCACAACGGTGAA-TC
127 -TTGAGGCTGCGACGGTGAACTC
* * * * * *
65353 TGGTACCAT-GGAGATATGAAGGGAAAGGTGAAGGCCGCAATGACAAACCCGGTACCTTAGAAGA
1 -GGTACCTTAGAAGATGTGAAGAGAAAGGTGAAGGCCGCAATGGCGAACCC-GTACCTTAGAAGA
*
65417 TGTGATAGGAAAGATTAAGGCCGCAATGGCGAATCTGGTACCATAAAGATATGAAGGGAAAGGTT
64 TGTGATAGGAAAGATTGAGGCCGCAATGGCGAATCTGGTACCATAAAGATATGAAGGGAAAGGTT
*
65482 GAGGCTGCGACGGCGAACTC
129 GAGGCTGCGACGGTGAACTC
* * ** *
65502 AGTACCTTAGAAGATGT-AATGAGAAAGGTTAAGGCCATAATGGCGAACCC-AACGTCTTAGAAG
1 GGTACCTTAGAAGATGTGAA-GAGAAAGGTGAAGGCCGCAATGGCGAACCCGTAC--CTTAGAAG
* * * * *
65565 ATGTGATAGGAAGGATTGAGGCCGCAACGACGAATCTGGTACCATTAAGATATGAAGGGAATGGT
63 ATGTGATAGGAAAGATTGAGGCCGCAATGGCGAATCTGGTACCATAAAGATATGAAGGGAAAGGT
* * * *
65630 AGGGGCTG-GAACGATGAACCC
128 TGAGGCTGCG-ACGGTGAACTC
65651 GGTACCTTAGAAGATGTGA
1 GGTACCTTAGAAGATGTGA
65670 TGGGAAGGAT
Statistics
Matches: 266, Mismatches: 39, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
147 2 0.01
148 33 0.12
149 228 0.86
150 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (148 bp):
GGTACCTTAGAAGATGTGAAGAGAAAGGTGAAGGCCGCAATGGCGAACCCGTACCTTAGAAGATG
TGATAGGAAAGATTGAGGCCGCAATGGCGAATCTGGTACCATAAAGATATGAAGGGAAAGGTTGA
GGCTGCGACGGTGAACTC
Found at i:65547 original size:50 final size:50
Alignment explanation
Indices: 65069--65549 Score: 358
Period size: 50 Copynumber: 9.7 Consensus size: 50
65059 GAACATAAAT
* * * * * * *
65069 ATATGAAGGGAAAGATTAAGGTCGTAATGGCGAACCCAGCACCAT-GAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCGGTACCTTAGAAG
* * *
65118 ATATGAAGGGAAATGTTAAGGCTGCAA-GGACGAA-TCTGGCACCTTAGAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGG-CGAACTC-GGTACCTTAGAAG
* * * ** * * **
65168 ATGTGATGGAAAAAATTAAGGCCGTAACGATGAA-TCTGGTACCTT-GAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTC-GGTACCTTAGAAG
* * * *
65217 ATATGAAGGGAAAGGTGAAGGCCGCAATGGCGAACCCGATACCTTAAAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCGGTACCTTAGAAG
* *
65267 ATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCTTAGAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCGGTACCTTAGAAG
* * * * * * *
65317 ATGT-AATGGG-AAGGATTGAGGCCACAACGGTGAA-TCTGGTACCAT-GGAG
1 ATATGAA-GGGAAAGG-TTAAGGCCGCAATGGCGAACTC-GGTACCTTAGAAG
* * * *
65366 ATATGAAGGGAAAGGTGAAGGCCGCAATGACAAACCCGGTACCTTAGAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCGGTACCTTAGAAG
* * *
65416 ATGTGATA-GGAAAGATTAAGGCCGCAATGGCGAA-TCTGGTACCATA-AAG
1 ATATGA-AGGGAAAGGTTAAGGCCGCAATGGCGAACTC-GGTACCTTAGAAG
* * * * *
65465 ATATGAAGGGAAAGGTTGAGGCTGCGACGGCGAACTCAGTACCTTAGAAG
1 ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCGGTACCTTAGAAG
* * **
65515 ATGT-AATGAGAAAGGTTAAGGCCATAATGGCGAAC
1 ATATGAA-GGGAAAGGTTAAGGCCGCAATGGCGAAC
65550 CCAACGTCTT
Statistics
Matches: 337, Mismatches: 76, Indels: 37
0.75 0.17 0.08
Matches are distributed among these distances:
48 4 0.01
49 141 0.42
50 190 0.56
51 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.31, T:0.18
Consensus pattern (50 bp):
ATATGAAGGGAAAGGTTAAGGCCGCAATGGCGAACTCGGTACCTTAGAAG
Found at i:65563 original size:248 final size:245
Alignment explanation
Indices: 65109--65747 Score: 721
Period size: 248 Copynumber: 2.6 Consensus size: 245
65099 CGAACCCAGC
* * * * *
65109 ACCATGAAGATATGAAGGGAAATGTTAAGGCTGCAAGGACGAATCTGGCACCTTAGAAGATGTGA
1 ACCATGAAGATATGAAGGGAAA-GGTAAGGCTGCAACGACGAACCCGGTACCTTAGAAGATGTGA
* * * * *
65174 TGGAAAAAATTAAGGCCGTAACGATGAATCTGGTACCTTGAAGATATGAAGGGAAAGG-TGAAGG
65 TGG-AAAGATTAAGGCCGCAACGGTGAATCTGGTACCATAAAGATATGAAGGGAAAGGTTG-AGG
* * * * *
65238 CCGCAATGGCGAACCCGATACCTTAAAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACC
128 CCGCAACGGCGAACCAGATACCTTAAAAGATATGAAGAGAAAGGTTAAGGCCACAATGGCGAACC
* * **
65303 CGGTACCTTAGAAGATGTAATGGGAAGGATTGAGGCCACAACGGTGAATCTGGT
193 CCGTA-CTTAGAAGATGTAATAGGAAGGATTGAGGCCACAACGACGAATCTGGT
* * * *
65357 ACCATGGAGATATGAAGGGAAAGGTGAAGGCCGCAATGACAAACCCGGTACCTTAGAAGATGTGA
1 ACCATGAAGATATGAAGGGAAAGGT-AAGGCTGCAACGACGAACCCGGTACCTTAGAAGATGTGA
* *
65422 TAGGAAAGATTAAGGCCGCAATGGCGAATCTGGTACCATAAAGATATGAAGGGAAAGGTTGAGGC
65 T-GGAAAGATTAAGGCCGCAACGGTGAATCTGGTACCATAAAGATATGAAGGGAAAGGTTGAGGC
* * * * *
65487 TGCGACGGCGAACTCAG-TACCTTAGAAGATGT-AATGAGAAAGGTTAAGGCCATAATGGCGAAC
129 CGCAACGGCGAAC-CAGATACCTTAAAAGATATGAA-GAGAAAGGTTAAGGCCACAATGGCGAAC
* *
65550 CCAACGT-CTTAGAAGATGTGATAGGAAGGATTGAGGCCGCAACGACGAATCTGGT
192 CC--CGTACTTAGAAGATGTAATAGGAAGGATTGAGGCCACAACGACGAATCTGGT
* * * * *
65605 ACCATTAAGATATGAAGGGAATGGTAGGGGCTGGAACGATGAACCCGGTACCTTAGAAGATGTGA
1 ACCATGAAGATATGAAGGGAAAGGTA-AGGCTGCAACGACGAACCCGGTACCTTAGAAGATGTGA
* * * * * *
65670 TGGGAAGGATTGAGGCTGCAACGGTGAATCTTGTACCATGAAA-ATATGAACGGAAAGGTTGAAG
65 T-GGAAAGATTAAGGCCGCAACGGTGAATCTGGTACCAT-AAAGATATGAAGGGAAAGGTTGAGG
* *
65734 CCGCAGCGGTGAAC
128 CCGCAACGGCGAAC
65748 TTTATACCAT
Statistics
Matches: 329, Mismatches: 53, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
247 5 0.02
248 313 0.95
249 9 0.03
250 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (245 bp):
ACCATGAAGATATGAAGGGAAAGGTAAGGCTGCAACGACGAACCCGGTACCTTAGAAGATGTGAT
GGAAAGATTAAGGCCGCAACGGTGAATCTGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCG
CAACGGCGAACCAGATACCTTAAAAGATATGAAGAGAAAGGTTAAGGCCACAATGGCGAACCCCG
TACTTAGAAGATGTAATAGGAAGGATTGAGGCCACAACGACGAATCTGGT
Found at i:66091 original size:39 final size:39
Alignment explanation
Indices: 66034--66125 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
66024 AGACAATATT
*
66034 CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCCATC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATC
*
66073 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATC
*
66112 CAATCTTTTACCCC
1 CAATCTCTTACCCC
66126 TAAGTCAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (39 bp):
CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATC
Found at i:66643 original size:11 final size:11
Alignment explanation
Indices: 66617--66659 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
66607 TGGCCCAAAG
*
66617 TAAAAAAATAA
1 TAAATAAATAA
66628 -AAATAAA-AA
1 TAAATAAATAA
66637 TATAATAAATAA
1 TA-AATAAATAA
66649 TAAATAAATAA
1 TAAATAAATAA
66660 AAACAACATC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 2 0.07
10 7 0.25
11 15 0.54
12 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:69210 original size:29 final size:29
Alignment explanation
Indices: 69178--69386 Score: 171
Period size: 29 Copynumber: 7.1 Consensus size: 29
69168 AACTTCTCAC
*
69178 AAATCACATTTTGACCCTAAACTTTTCCA
1 AAATCACATTTTAACCCTAAACTTTTCCA
69207 AAATCACATTTTAACCCCTAAACTTTTCCA
1 AAATCACATTTTAA-CCCTAAACTTTTCCA
*
69237 AAATCACATTTCAACCCTAAACTTTTCCA
1 AAATCACATTTTAACCCTAAACTTTTCCA
** * **
69266 AAATTGCATTTTTAACTCCCAAACTCATCCA
1 AAATCACA-TTTTAAC-CCTAAACTTTTCCA
* * *
69297 AAATTACCATTTT-GCCCTAAA-ATTTCCA
1 AAATCA-CATTTTAACCCTAAACTTTTCCA
* *
69325 AAAGTCACATTTTCGA-CTTCAAA-TTTTCCA
1 AAA-TCACATTTT-AACCCT-AAACTTTTCCA
69355 AAAGTTCA-ATTTTAATCCC-AAA-TTTTCCA
1 AAA--TCACATTTTAA-CCCTAAACTTTTCCA
69384 AAA
1 AAA
69387 ATTTCAATTT
Statistics
Matches: 148, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
28 13 0.09
29 57 0.39
30 52 0.35
31 24 0.16
32 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATCACATTTTAACCCTAAACTTTTCCA
Found at i:69241 original size:59 final size:59
Alignment explanation
Indices: 69178--69337 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 59
69168 AACTTCTCAC
**
69178 AAATCACATTTTGACCCTAAACTTTTCCAAAATCACATTTTAAC-CCCTAAACTTTTCCA
1 AAATCACATTTTGACCCTAAACTTTTCCAAAATCACATTTTAACTCCC-AAACTCATCCA
** **
69237 AAATCACATTTCAACCCTAAACTTTTCCAAAATTGCATTTTTAACTCCCAAACTCATCCA
1 AAATCACATTTTGACCCTAAACTTTTCCAAAATCACA-TTTTAACTCCCAAACTCATCCA
* *
69297 AAATTACCATTTTG-CCCTAAA-ATTTCCAAAAGTCACATTTT
1 AAATCA-CATTTTGACCCTAAACTTTTCCAAAA-TCACATTTT
69338 CGACTTCAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
59 46 0.54
60 31 0.36
61 8 0.09
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
AAATCACATTTTGACCCTAAACTTTTCCAAAATCACATTTTAACTCCCAAACTCATCCA
Found at i:69407 original size:30 final size:29
Alignment explanation
Indices: 69305--69408 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
69295 CAAAATTACC
* *
69305 ATTTTGCCCT-AAAATTTCCAAAAG-TCA
1 ATTTTGACCTCAAATTTTCCAAAAGTTCA
*
69332 CATTTTCGACTTCAAATTTTCCAAAAGTTCA
1 -ATTTT-GACCTCAAATTTTCCAAAAGTTCA
* *
69363 ATTTTAATCC-CAAATTTTCCAAAAATTTCA
1 ATTTTGA-CCTCAAATTTTCC-AAAAGTTCA
69393 ATTTTGACCTCAAATT
1 ATTTTGACCTCAAATT
69409 CCTCGAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.08
29 16 0.25
30 39 0.62
31 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (29 bp):
ATTTTGACCTCAAATTTTCCAAAAGTTCA
Found at i:70281 original size:323 final size:324
Alignment explanation
Indices: 69687--70282 Score: 724
Period size: 323 Copynumber: 1.8 Consensus size: 324
69677 ATAAACCTTT
* * *
69687 AAAATCGAGGCAATATCCTTTACGTGTGTAAATCTCGAAAAATCATGCCCTAACGTGCTGGGTGT
1 AAAAACGAGGCAATATCCTTTACGTATGTAAATCTCGAAAAATCATGCCCTAACGTGCTGGGTAT
* * * * * *
69752 GATTTTTCGTATAATTTGCACGAATCTAATATCCTCTTCTAAACTTTTCAAATGCCCTTTAATTT
66 AATCTTTCGTATAATTCGCACGAATCAAATATCCTCTTCTAAACTTTTAAAATGCCCTTTAATGT
* * * * * *
69817 CGAGATTCTGAGAACGTCATGCCCTAACGTGTTGGACACGACTTCAATTTCTGAGAAATTCAAAA
131 CGAAACTCCGAAAACGTCATGCCCTAACGTGTTGGACACAACTTCAATTTCTAAGAAATTCAAAA
* * * * * * *
69882 CATACGGGCATTTTTCTGCAAATCTAATTTTTGAAAATCACCTGAAATAAGTTATGTGTCTGAGG
196 CACACGGACATTTTTCTGCAAATATAATTTTTGAAAATCACATGAAATAAGTTATGAGTCTAAAG
* *
69947 ATTGTATTTTAAACTTAATTCGAAACTTCAAGTTCTCAAAAATATAGAAATGATTTTAAACAAA
261 ATCGCATTTTAAACTTAATTCGAAACTTCAAGTTCTCAAAAATATAGAAATGATTTTAAACAAA
* * *
70011 AAAAACGAGGCAATATCCTTT-CGTATG-AAAGTTTCGAAAGATTATGCCCTAACGTGCTGGGTA
1 AAAAACGAGGCAATATCCTTTACGTATGTAAA-TCTCGAAAAATCATGCCCTAACGTGCTGGGTA
** *
70074 TAATCTTTCGTATAATTCGTGCG-ATCAAATATCCTCTT-TGAAATCTTTTAAAATGTCCTTTAA
65 TAATCTTTCGTATAATTCGCACGAATCAAATATCCTCTTCT-AAA-CTTTTAAAATGCCCTTTAA
*
70137 TGTCGAAACTCCGAAAACGT-AGTGCCCTAACGTGTTGGACACAACTTTAATTCTCTAAGAAATT
128 TGTCGAAACTCCGAAAACGTCA-TGCCCTAACGTGTTGGACACAACTTCAATT-TCTAAGAAATT
* ** * * *
70201 CCAAATGCACGGACATTTTTCT-CAAATATGATTTTTGAAAA-C-CATGCAAAGTTATTTATGAG
191 CAAAACACACGGACATTTTTCTGCAAATATAATTTTTGAAAATCACATG-AAA-TAAGTTATGAG
70263 TAC-AAAGATCGCATTTTAAA
254 T-CTAAAGATCGCATTTTAAA
70283 TTCGCTCGAG
Statistics
Matches: 227, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
321 4 0.02
322 25 0.11
323 150 0.66
324 48 0.21
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (324 bp):
AAAAACGAGGCAATATCCTTTACGTATGTAAATCTCGAAAAATCATGCCCTAACGTGCTGGGTAT
AATCTTTCGTATAATTCGCACGAATCAAATATCCTCTTCTAAACTTTTAAAATGCCCTTTAATGT
CGAAACTCCGAAAACGTCATGCCCTAACGTGTTGGACACAACTTCAATTTCTAAGAAATTCAAAA
CACACGGACATTTTTCTGCAAATATAATTTTTGAAAATCACATGAAATAAGTTATGAGTCTAAAG
ATCGCATTTTAAACTTAATTCGAAACTTCAAGTTCTCAAAAATATAGAAATGATTTTAAACAAA
Found at i:75246 original size:7 final size:7
Alignment explanation
Indices: 75234--75296 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
75224 CAATAAGAAG
75234 AAAAAGA
1 AAAAAGA
75241 AAAAAGA
1 AAAAAGA
* *
75248 AAAGACA
1 AAAAAGA
*
75255 AAAAAGT
1 AAAAAGA
75262 AAAAAGA
1 AAAAAGA
*
75269 AGAAAGA
1 AAAAAGA
*
75276 AGAAAGA
1 AAAAAGA
75283 AAAAA-A
1 AAAAAGA
75289 AAGAAAGA
1 AA-AAAGA
75297 GAAAGAGGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
6 3 0.07
7 42 0.91
8 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:75295 original size:21 final size:21
Alignment explanation
Indices: 75228--75302 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
75218 TTCACTCAAT
*
75228 AAGAAGAAA-AAGAAAAAAGAA
1 AAGAAGAAAGAAAAAAAAAG-A
* * *
75249 AAGACAAAAAAGTAAAAAGAAGA
1 AAG--AAGAAAGAAAAAAAAAGA
75272 AAGAAGAAAGAAAAAAAAAGA
1 AAGAAGAAAGAAAAAAAAAGA
75293 AAG-AGAAAGA
1 AAGAAGAAAGA
75303 GGGAAAAAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.16
21 21 0.48
23 9 0.20
24 7 0.16
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.01
Consensus pattern (21 bp):
AAGAAGAAAGAAAAAAAAAGA
Found at i:75310 original size:44 final size:44
Alignment explanation
Indices: 75228--75317 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
75218 TTCACTCAAT
* *
75228 AAGAAGAAAAAGAAAAAAGAAAAGACAAAAAAGTAAAAAGAAGA
1 AAGAAGAAAAAAAAAAAAGAAAAGACAAAAAAGGAAAAAGAAGA
* * * *
75272 AAGAAGAAAGAAAAAAAAAG-AAAGAGAAAGAGGGAAAAAGGAGA
1 AAGAAGAAA-AAAAAAAAAGAAAAGACAAAAAAGGAAAAAGAAGA
75316 AA
1 AA
75318 AAGGTGAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 30 0.77
45 9 0.23
ACGTcount: A:0.74, C:0.01, G:0.23, T:0.01
Consensus pattern (44 bp):
AAGAAGAAAAAAAAAAAAGAAAAGACAAAAAAGGAAAAAGAAGA
Found at i:76333 original size:49 final size:49
Alignment explanation
Indices: 76283--76695 Score: 386
Period size: 49 Copynumber: 8.4 Consensus size: 49
76273 AAAATATGAA
* * *
76283 GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATGCGAA
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAT
* * * * *
76332 GGGAAAGGTTAAGGCCGTAACGGCGAACCCGATACCTTAAAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGAT
* * *
76382 GGGAAAGATTGAGGCTGCAACGGCGAATCCGGTACCATGAA-ATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAT
* * * * * *
76430 GCGAAAGGTTGAGGTCGAAATGGCGAACCTGGTACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGAT
* *
76480 GGG-AAGGATTGAGGCCTG-AACGGCGAATCCGGTACCACGAA-ATGTGAT
1 GGGAAAGG-TTGAGGCC-GCAACGGCGAACCCGGTACCATGAAGATGTGAT
* * * * *
76528 GGGAAAGGTTAAGGCCGCAATGGCGAACCTGGTACCTTAGGAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGTGAT
** * ** *
76578 GGG-AAGGATTGAGGTTGCAACGGTGAATTCAGTACCATGAAGATGTGAT
1 GGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAT
* * * * ** * * *
76627 TGAAAAAGTTGAGGCCGTAACGGTAAACCTGGTACCATGAAGATTTGAA
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAT
76676 GGGAAAGGTTGAGGCCGCAA
1 GGGAAAGGTTGAGGCCGCAA
76696 TGACAAACCC
Statistics
Matches: 286, Mismatches: 67, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.00
48 68 0.24
49 113 0.40
50 103 0.36
51 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGTGAT
Found at i:76479 original size:98 final size:99
Alignment explanation
Indices: 76283--76695 Score: 474
Period size: 98 Copynumber: 4.2 Consensus size: 99
76273 AAAATATGAA
* * * * * *
76283 GGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATGCGAAGGGAAAGGTTAAGGCC
1 GGGAAAGATTGAGGCTGCAACGGCGAATCCGGTACCATGAAGATGTGATGGGAAAGGTTAAGGCC
* * *
76348 GTAACGGCGAACCCGATACCTTAAAAGATGTGAT
66 GTAACGGCGAACCTGGTACCTTAGAAGATGTGAT
* * *
76382 GGGAAAGATTGAGGCTGCAACGGCGAATCCGGTACCATGAA-ATGTGATGCGAAAGGTTGAGGTC
1 GGGAAAGATTGAGGCTGCAACGGCGAATCCGGTACCATGAAGATGTGATGGGAAAGGTTAAGGCC
* *
76446 GAAATGGCGAACCTGGTACCTTAGAAGATGTGAT
66 GTAACGGCGAACCTGGTACCTTAGAAGATGTGAT
* *
76480 GGGAAGGATTGAGGCCTG-AACGGCGAATCCGGTACCACGAA-ATGTGATGGGAAAGGTTAAGGC
1 GGGAAAGATTGAGG-CTGCAACGGCGAATCCGGTACCATGAAGATGTGATGGGAAAGGTTAAGGC
* * *
76543 CGCAATGGCGAACCTGGTACCTTAGGAGATGTGAT
65 CGTAACGGCGAACCTGGTACCTTAGAAGATGTGAT
* * * * * * * * *
76578 GGGAAGGATTGAGGTTGCAACGGTGAATTCAGTACCATGAAGATGTGATTGAAAAAGTTGAGGCC
1 GGGAAAGATTGAGGCTGCAACGGCGAATCCGGTACCATGAAGATGTGATGGGAAAGGTTAAGGCC
** * * *
76643 GTAACGGTAAACCTGGTACCAT-GAAGATTTGAA
66 GTAACGGCGAACCTGGTACCTTAGAAGATGTGAT
* *
76676 GGGAAAGGTTGAGGCCGCAA
1 GGGAAAGATTGAGGCTGCAA
76696 TGACAAACCC
Statistics
Matches: 269, Mismatches: 42, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
97 2 0.01
98 191 0.71
99 76 0.28
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (99 bp):
GGGAAAGATTGAGGCTGCAACGGCGAATCCGGTACCATGAAGATGTGATGGGAAAGGTTAAGGCC
GTAACGGCGAACCTGGTACCTTAGAAGATGTGAT
Found at i:76690 original size:196 final size:196
Alignment explanation
Indices: 76270--76705 Score: 529
Period size: 196 Copynumber: 2.2 Consensus size: 196
76260 CCAAGAAAAT
* *
76270 ATGAAAATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCATGAAGATGCGAAGGG
1 ATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCACGAAGATGCGAAGGG
*
76335 AAAGGTTAAGGCCGTAACGGCGAACCCGATACCTTAAAAGATGTGATGGGAAAGATTGAGGCTGC
66 AAAGGTTAAGGCCGCAACGGCGAACCCGATACCTTAAAAGATGTGATGGGAAAGATTGAGGCTGC
* * * * * *
76400 AACGGCGAATCCGGTACCATGAAATGTGATGCGAAAGGTTGAGGTCGAAATGGCGAACCTGGTAC
131 AACGGCGAATCCAGTACCATGAAATGTGATGCAAAAAGTTGAGGCCGAAACGGCAAACCTGGTAC
76465 C
196 C
* * * * * * *
76466 TTAGAAGATGTGATGGG-AAGGATTGAGGCCTG-AACGGCGAATCCGGTACCACGAA-ATGTGAT
1 AT-GAAGATATGAAGGGAAAGG-TTGAGGCC-GCAACGACGAACCCGGTACCACGAAGATGCGAA
* * * ** * *
76528 GGGAAAGGTTAAGGCCGCAATGGCGAACCTGGTACCTTAGGAGATGTGATGGGAAGGATTGAGGT
63 GGGAAAGGTTAAGGCCGCAACGGCGAACCCGATACCTTAAAAGATGTGATGGGAAAGATTGAGGC
* * * *
76593 TGCAACGGTGAATTCAGTACCATGAAGATGTGATTG-AAAAAGTTGAGGCCGTAACGGTAAACCT
128 TGCAACGGCGAATCCAGTACCATGAA-ATGTGA-TGCAAAAAGTTGAGGCCGAAACGGCAAACCT
76657 GGTACC
191 GGTACC
* * *
76663 ATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGACAAACCC
1 ATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCC
76706 AACACCTTAA
Statistics
Matches: 199, Mismatches: 34, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
195 1 0.01
196 118 0.59
197 77 0.39
198 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.19
Consensus pattern (196 bp):
ATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGGTACCACGAAGATGCGAAGGG
AAAGGTTAAGGCCGCAACGGCGAACCCGATACCTTAAAAGATGTGATGGGAAAGATTGAGGCTGC
AACGGCGAATCCAGTACCATGAAATGTGATGCAAAAAGTTGAGGCCGAAACGGCAAACCTGGTAC
C
Found at i:77163 original size:78 final size:77
Alignment explanation
Indices: 77079--77470 Score: 339
Period size: 78 Copynumber: 5.0 Consensus size: 77
77069 CAGTCATCTG
*
77079 ATCTTTTACCCCGAGCCTGGGGAAGATCACCATCAGCCAATCTCTTACCCCGAGCTTAGGGAAGA
1 ATCTTTTACCCCGAGCCTGGGGAAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAA-A
* * *
77144 TTGTAGCCATTCG
65 TTGCAACCATTCA
** * * *
77157 ATCTTTTACCCTAAG-CTTGGGACAGATCACCATCAACCAATCTCTTACCCCGAGCCTAGGG-CA
1 ATCTTTTACCCCGAGCCTGGGGA-AGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAAA
*
77220 TAT-C-ACCATCAACAA
65 T-TGCAACCAT--TC-A
* * * * *
77235 ATCTCTTACCCCGAGCCTGAGGCAA-ATCACCATAAGCCAATCTCTTACCTCGAGCCTGGGGCAA
1 ATCTTTTACCCCGAGCCTG-GGGAAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG-AA
* *
77299 ATTGCAACCATCCT
64 ATTGCAACCATTCA
* * * *
77313 ATCTCTTACCCCGAGCTTGGGGCAA-ATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAA
1 ATCTTTTACCCCGAGCCTGGGG-AAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-AGGGAA
*
77377 ATTGTAACCATTCA
64 ATTGCAACCATTCA
* * * * * * * * *
77391 ATTTTTTATCCCGATCATGGGGCAGATCATCGTCAGCCAATCTCTTACCCCGCGAC-AGGGGTAA
1 ATCTTTTACCCCGAGCCTGGGGAAGATCACCATCAGCCAATCTCTTACCCCGAGCCTA-GGG-AA
*
77455 ATTGCAACCATCCA
64 ATTGCAACCATTCA
77469 AT
1 AT
77471 ATCTTACTAA
Statistics
Matches: 252, Mismatches: 46, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
75 4 0.02
76 3 0.01
77 13 0.05
78 214 0.85
79 7 0.03
80 6 0.02
81 5 0.02
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (77 bp):
ATCTTTTACCCCGAGCCTGGGGAAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGAAAT
TGCAACCATTCA
Found at i:77368 original size:39 final size:39
Alignment explanation
Indices: 77079--77378 Score: 261
Period size: 39 Copynumber: 7.7 Consensus size: 39
77069 CAGTCATCTG
*
77079 ATCTTTTACCCCGAGCCTGGGG-AAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAA-ATCACCATCAGCCA
* * *
77118 ATCTCTTACCCCGAGCTTAGGG-AAGATTGTAGCCATTC-G---
1 ATCTCTTACCCCGAGCCTGGGGCAA-A-T-CA-CCA-TCAGCCA
* ** * * * *
77157 ATCTTTTACCCTAAGCTTGGGACAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCA
* * * *
77196 ATCTCTTACCCCGAGCCTAGGGCATATCACCATCAACAA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCA
* *
77235 ATCTCTTACCCCGAGCCTGAGGCAAATCACCATAAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCA
* ** * * * *
77274 ATCTCTTACCTCGAGCCTGGGGCAAATTGCAACCATCCT
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCA
*
77313 ATCTCTTACCCCGAGCTTGGGGCAAATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCA
* *
77352 ATCTCTTACCCCGAGCTTGAGGCAAAT
1 ATCTCTTACCCCGAGCCTGGGGCAAAT
77379 TGTAACCATT
Statistics
Matches: 208, Mismatches: 44, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
35 2 0.01
36 3 0.01
37 1 0.00
38 1 0.00
39 192 0.92
40 2 0.01
41 1 0.00
42 4 0.02
43 2 0.01
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCA
Found at i:77412 original size:117 final size:116
Alignment explanation
Indices: 77079--77442 Score: 335
Period size: 117 Copynumber: 3.1 Consensus size: 116
77069 CAGTCATCTG
* *
77079 ATCTTTTACCCCGAGCCTGGGG-AAGATCACCATCAGCCAATCTCTTACCCCGAGCTT-AGGGAA
1 ATCTCTTACCCCGAGCCTGGGGCAA-ATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAA
* * * * * * * *
77142 GATTGTAGCCATTCGATCTTTTACCCTAAGCTTGGGACAGATCACCATCAACCA
65 -ATTGTAACCATTCAATCTTTTACCC-GAGCATGGGGCAAATCACAACCAACCA
* * * * *
77196 ATCTCTTACCCCGAGCCTAGGGCATATCACCATCAACAAATCTCTTACCCCGAGCCTGAGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
* * * * ** * *
77261 ---TCACCATAAGCCAATCTCTTACCTCGAGCCTGGGGCAAATTGCAACCATCCT
66 TTGTAACCAT---TCAATCTTTTACC-CGAGCATGGGGCAAATCACAACCAACCA
*
77313 ATCTCTTACCCCGAGCTTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
* * * ** *
77378 TTGTAACCATTCAATTTTTTATCCCGATCATGGGGCAGATCATC-GTCAGCCA
66 TTGTAACCATTCAATCTTTTA-CCCGAGCATGGGGCAAATCA-CAACCAACCA
77430 ATCTCTTACCCCG
1 ATCTCTTACCCCG
77443 CGACAGGGGT
Statistics
Matches: 195, Mismatches: 41, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
114 5 0.03
117 174 0.89
118 10 0.05
120 6 0.03
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.24
Consensus pattern (116 bp):
ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAAA
TTGTAACCATTCAATCTTTTACCCGAGCATGGGGCAAATCACAACCAACCA
Found at i:77989 original size:11 final size:11
Alignment explanation
Indices: 77975--78048 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
77965 CTGAACCCAT
77975 TTTTAAATTTA
1 TTTTAAATTTA
*
77986 TTTTAAATCTAA
1 TTTTAAAT-TTA
* *
77998 ATTT-ATTTTAA
1 TTTTAAATTT-A
*
78009 GTTTAAATTTA
1 TTTTAAATTTA
*
78020 TTTTAGA---A
1 TTTTAAATTTA
78028 -TTTAAATTTA
1 TTTTAAATTTA
78038 TTTTAAATTTA
1 TTTTAAATTTA
78049 AATTAATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
10 2 0.04
11 30 0.64
12 9 0.19
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:78000 original size:17 final size:17
Alignment explanation
Indices: 77976--78052 Score: 127
Period size: 17 Copynumber: 4.5 Consensus size: 17
77966 TGAACCCATT
77976 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
77993 TCTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
78010 TTTAAATTTATTTTAGAA
1 TTTAAATTTATTTTA-AA
78028 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
78045 TTTAAATT
1 TTTAAATT
78053 AATAATGTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 39 0.71
18 16 0.29
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:78041 original size:35 final size:34
Alignment explanation
Indices: 77976--78052 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 34
77966 TGAACCCATT
*
77976 TTTAAATTTATTTTAAATCTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAATCTAAATTTATTTTAAA
*
78010 TTTAAATTTATTTTAGAATTTAAATTTATTTTAAA
1 TTTAAATTTATTTTA-AATCTAAATTTATTTTAAA
78045 TTTAAATT
1 TTTAAATT
78053 AATAATGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 15 0.38
35 25 0.62
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATCTAAATTTATTTTAAA
Found at i:78054 original size:5 final size:6
Alignment explanation
Indices: 77976--78052 Score: 63
Period size: 6 Copynumber: 13.3 Consensus size: 6
77966 TGAACCCATT
* * * * *
77976 TTTAAA TTT-AT TTTAAA TCTAAA TTT-AT TTTAAG TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
78021 TTTAGAA TTTAAA TTT-AT TTTAAA TTTAAA TT
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TT
78053 AATAATGTCC
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
5 16 0.29
6 34 0.62
7 5 0.09
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:78726 original size:14 final size:15
Alignment explanation
Indices: 78690--78735 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
78680 ACTTAAAACG
78690 TTTATATA-TATATA
1 TTTATATATTATATA
* *
78704 TTTACATATTATTTA
1 TTTATATATTATATA
78719 -TTATATATTAATATA
1 TTTATATATT-ATATA
78734 TT
1 TT
78736 CACTAGTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 15 0.60
15 9 0.36
16 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATATATTATATA
Found at i:78750 original size:30 final size:28
Alignment explanation
Indices: 78691--78750 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
78681 CTTAAAACGT
* *
78691 TTATATATATATATTTACATATTATTTA
1 TTATATATATATATTCACATATTACTTA
78719 TTATATATTAATATATTCAC-TAGTTACTTA
1 TTATATA-T-ATATATTCACATA-TTACTTA
78749 TT
1 TT
78751 TATTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.26
29 3 0.11
30 17 0.63
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (28 bp):
TTATATATATATATTCACATATTACTTA
Found at i:79895 original size:30 final size:30
Alignment explanation
Indices: 79828--79948 Score: 115
Period size: 30 Copynumber: 4.1 Consensus size: 30
79818 TAGTTCAGAA
* * *
79828 GACCCTCGAACTTCAC-AAAATTATATTATT
1 GACCCTCGAACTTCTCAAAAATCACATT-TT
*
79858 -ACTCTCGAACTTCTCAAAAATCACATTTT
1 GACCCTCGAACTTCTCAAAAATCACATTTT
*
79887 GACCCTCGAATTTCTCAAAAATCACATTTT
1 GACCCTCGAACTTCTCAAAAATCACATTTT
* * * *
79917 AACCCT-AAACTTTTCCAAAAT-AGCATTTT
1 GACCCTCGAACTTCTCAAAAATCA-CATTTT
79946 GAC
1 GAC
79949 TCCCAAACTC
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.01
29 34 0.45
30 41 0.54
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (30 bp):
GACCCTCGAACTTCTCAAAAATCACATTTT
Found at i:80073 original size:29 final size:29
Alignment explanation
Indices: 80002--80104 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
79992 AAAAATTACC
*
80002 ATTTTACCCCCAAA-TTTCCAAAAG-TCAA
1 ATTTTAACCCCAAATTTTCCAAAAGTTC-A
* * *
80030 ATTTTCGACCTCAAATTTTCCAAAAGTTCG
1 ATTTT-AACCCCAAATTTTCCAAAAGTTCA
* *
80060 ATTTTAATCCCAAATTTTCCAAAATTTCA
1 ATTTTAACCCCAAATTTTCCAAAAGTTCA
*
80089 ATTTTGACCCCAAATT
1 ATTTTAACCCCAAATT
80105 CCTCAAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
28 5 0.08
29 39 0.64
30 15 0.25
31 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (29 bp):
ATTTTAACCCCAAATTTTCCAAAAGTTCA
Found at i:80840 original size:8 final size:8
Alignment explanation
Indices: 80827--80852 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
80817 AATGTCCTTT
80827 AATTTCGA
1 AATTTCGA
80835 AATTTCGA
1 AATTTCGA
80843 AATTTCGA
1 AATTTCGA
80851 AA
1 AA
80853 ACGTAGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (8 bp):
AATTTCGA
Found at i:81535 original size:17 final size:17
Alignment explanation
Indices: 81515--81609 Score: 77
Period size: 17 Copynumber: 5.6 Consensus size: 17
81505 AATCGATCCA
81515 ATTTTAAATTTTAAATT
1 ATTTTAAATTTTAAATT
* *
81532 A-TTTAAATTTGAATTT
1 ATTTTAAATTTTAAATT
*
81548 ACTTTAAATTTTAAACTT
1 ATTTTAAATTTTAAA-TT
* * *
81566 ATTTTAAGTTTGAATTT
1 ATTTTAAATTTTAAATT
* *
81583 ACTTTACA-TTTAAATTT
1 ATTTTAAATTTTAAA-TT
*
81600 ATTCTAAATT
1 ATTTTAAATT
81610 AAAATTAATT
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
16 18 0.31
17 26 0.45
18 14 0.24
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTTAAATT
Found at i:81579 original size:35 final size:34
Alignment explanation
Indices: 81517--81609 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 34
81507 TCGATCCAAT
81517 TTTAAATTTTAAATTA-TTTAAATTTGAATTTAC
1 TTTAAATTTTAAATTATTTTAAATTTGAATTTAC
*
81550 TTTAAATTTTAAACTTATTTTAAGTTTGAATTTAC
1 TTTAAATTTTAAA-TTATTTTAAATTTGAATTTAC
* *
81585 TTTACA-TTTAAATTTATTCTAAATT
1 TTTAAATTTTAAA-TTATTTTAAATT
81610 AAAATTAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 13 0.25
34 19 0.36
35 21 0.40
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (34 bp):
TTTAAATTTTAAATTATTTTAAATTTGAATTTAC
Found at i:82380 original size:12 final size:12
Alignment explanation
Indices: 82363--82431 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
82353 GTTAGTTTAT
*
82363 AATAATATTAAC
1 AATAATAATAAC
*
82375 AATAATGAA-GAC
1 AATAAT-AATAAC
* *
82387 AATACTAATGAC
1 AATAATAATAAC
* *
82399 ACTAATAATAAT
1 AATAATAATAAC
82411 AATAATAATAAC
1 AATAATAATAAC
82423 AATAATAAT
1 AATAATAAT
82432 GATCATAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.93
13 1 0.02
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:82409 original size:3 final size:3
Alignment explanation
Indices: 82401--82471 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
82391 CTAATGACAC
* * * *
82401 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TGA TCA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
82449 TAT TAA TTAA TAT TAA TAT TAA T
1 TAA TAA -TAA TAA TAA TAA TAA T
82472 TTTAAATAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:82439 original size:12 final size:12
Alignment explanation
Indices: 82392--82446 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
82382 AAGACAATAC
82392 TAATGA-CACTAA
1 TAATGATCA-TAA
* *
82404 TAATAATAATAA
1 TAATGATCATAA
*
82416 TAAT-AACAATAA
1 TAATGATC-ATAA
82428 TAATGATCATAA
1 TAATGATCATAA
82440 TAATGAT
1 TAATGAT
82447 AATATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 1 0.03
12 31 0.89
13 3 0.09
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.31
Consensus pattern (12 bp):
TAATGATCATAA
Found at i:83572 original size:30 final size:30
Alignment explanation
Indices: 83542--83799 Score: 171
Period size: 29 Copynumber: 8.8 Consensus size: 30
83532 CCCTACACTA
*
83542 TCCAAAAATTACATTTTTACCCTTAAACTA
1 TCCAAAAATTACATTTTTACCCTTAAACTT
* * **
83572 TCC-AAAATTCCATTTTGGA-CCTT-ATTTT
1 TCCAAAAATTACATTTT-TACCCTTAAACTT
*
83600 TCCAAAAATTACCA-TTTTACCCATAAACTT
1 TCCAAAAATTA-CATTTTTACCCTTAAACTT
83630 TCCAAAAATTACATTTTTACCCTTAAAC-T
1 TCCAAAAATTACATTTTTACCCTTAAACTT
* * * **
83659 TCCCAAAATTCCATTTTTTACCC-TGATTTT
1 TCCAAAAATTACA-TTTTTACCCTTAAACTT
* **
83689 TTCAAAAATTACCA-TTTTACCCCCAAAC-T
1 TCCAAAAATTA-CATTTTTACCCTTAAACTT
* * **
83718 TCTAAAAATTCCATATTTTA-CC-TAGATTTT
1 TCCAAAAATTACAT-TTTTACCCTTA-AACTT
*
83748 TCCAAAAATTACCA-TTTTACCCCTAAAC-T
1 TCCAAAAATTA-CATTTTTACCCTTAAACTT
* * *
83777 TCTAAAAATTCCATTTTGACCCT
1 TCCAAAAATTACATTTTTACCCT
83800 GATTCATCAA
Statistics
Matches: 173, Mismatches: 37, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
28 11 0.06
29 86 0.50
30 70 0.40
31 6 0.03
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (30 bp):
TCCAAAAATTACATTTTTACCCTTAAACTT
Found at i:83667 original size:59 final size:57
Alignment explanation
Indices: 83532--83799 Score: 213
Period size: 59 Copynumber: 4.5 Consensus size: 57
83522 CCCTAAAGGT
* * *
83532 CCCTACACTATCCAAAAATTACATTTTTACCCTTAAACTATCC-AAAATT-CCATTTTGGA-
1 CCCTAAACT-TCCAAAAATTCCA-TTTTACCC-TAAACTTTCCAAAAATTACCATTTT--AC
* ***
83591 CCTTATTTTTCCAAAAATTACCATTTTACCCATAAACTTTCCAAAAATTA-CATTTTTAC
1 CCCTAAACTTCCAAAAATT-CCATTTTACCC-TAAACTTTCCAAAAATTACCA-TTTTAC
* * * ** *
83650 CCTTAAACTTCCCAAAATTCCATTTTTTACCCTGATTTTTTCAAAAATTACCATTTTAC
1 CCCTAAACTTCCAAAAATTCCA--TTTTACCCTAAACTTTCCAAAAATTACCATTTTAC
* * **
83709 CCCCAAACTTCTAAAAATTCCATATTTTA-CCTAGATTTTTCCAAAAATTACCATTTTAC
1 CCCTAAACTTCCAAAAATTCC--ATTTTACCCTA-AACTTTCCAAAAATTACCATTTTAC
*
83768 CCCTAAACTTCTAAAAATTCCATTTTGACCCT
1 CCCTAAACTTCCAAAAATTCCATTTT-ACCCT
83800 GATTCATCAA
Statistics
Matches: 174, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
57 5 0.03
58 35 0.20
59 119 0.68
60 14 0.08
61 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (57 bp):
CCCTAAACTTCCAAAAATTCCATTTTACCCTAAACTTTCCAAAAATTACCATTTTAC
Found at i:83725 original size:88 final size:88
Alignment explanation
Indices: 83542--83739 Score: 283
Period size: 88 Copynumber: 2.2 Consensus size: 88
83532 CCCTACACTA
*
83542 TCCAAAAATTACATTTTTACCCTTAAACTATCCAAAATTCCATTTTGGACCTTATTTTTCCAAAA
1 TCCAAAAATTACATTTTTACCCTTAAACTATCCAAAATTCCATTTTGGACCTGATTTTTCCAAAA
*
83607 ATTACCATTTTACCCATAAACTT
66 ATTACCATTTTACCCACAAACTT
** *
83630 TCCAAAAATTACATTTTTACCCTTAAACT-TCCCAAAATTCCATTTTTTACCCTGATTTTTTCAA
1 TCCAAAAATTACATTTTTACCCTTAAACTAT-CCAAAATTCCATTTTGGA-CCTGATTTTTCCAA
*
83694 AAATTACCATTTTACCCCCAAAC-T
64 AAATTACCATTTTACCCACAAACTT
* *
83718 TCTAAAAATTCCATATTTTACC
1 TCCAAAAATTACAT-TTTTACC
83740 TAGATTTTTC
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
87 1 0.01
88 58 0.59
89 40 0.40
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (88 bp):
TCCAAAAATTACATTTTTACCCTTAAACTATCCAAAATTCCATTTTGGACCTGATTTTTCCAAAA
ATTACCATTTTACCCACAAACTT
Found at i:83849 original size:28 final size:26
Alignment explanation
Indices: 83751--83857 Score: 81
Period size: 29 Copynumber: 3.8 Consensus size: 26
83741 AGATTTTTCC
* *
83751 AAAAATTACCATTTTACCCCTAAACTTCT
1 AAAAATT-CCATTTTAACCCT-GA-TTCT
*
83780 AAAAATTCCATTTTGACCCTGATTCAT
1 AAAAATTCCATTTTAACCCTGATTC-T
*
83807 CAAAAAGTACCATTTTAA-CCTCGAATGTCT
1 -AAAAA-TTCCATTTTAACCCT-G-AT-TCT
83837 AAAAATTCCATTTTTAACCCT
1 AAAAATTCCA-TTTTAACCCT
83858 CAATTTTTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
26 3 0.05
27 2 0.03
28 23 0.36
29 28 0.44
30 6 0.09
31 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
AAAAATTCCATTTTAACCCTGATTCT
Found at i:83900 original size:58 final size:56
Alignment explanation
Indices: 83603--83888 Score: 249
Period size: 59 Copynumber: 4.9 Consensus size: 56
83593 TTATTTTTCC
* * ** *
83603 AAAAATTACCA-TTTTACCCATAAACTTTCCAAAAATTA-CATTTTTACCCTTAAACTTCC
1 AAAAATT-CCATTTTTACCC-T-AATTTTTCAAAAATTACCA-TTTTACCC-CCAACTTCT
* *
83662 CAAAATTCCATTTTTTACCCTGATTTTTTCAAAAATTACCATTTTACCCCCAAACTTCT
1 AAAAATTCCA-TTTTTACCCT-AATTTTTCAAAAATTACCATTTTACCCCC-AACTTCT
*
83721 AAAAATTCCATATTTTA-CCTAGATTTTTCCAAAAATTACCATTTTACCCCTAAACTTCT
1 AAAAATTCCAT-TTTTACCCTA-ATTTTT-CAAAAATTACCATTTTACCCC-CAACTTCT
* * ** * * *
83780 AAAAATTCCATTTTGACCCTGATTCATCAAAAAGTACCATTTTAACCTCGAA-TGTCT
1 AAAAATTCCATTTTTACCCTAATTTTTCAAAAATTACCATTTT-ACCCCCAACT-TCT
*
83837 AAAAATTCCATTTTTAACCCTCAATTTTTC-CAAATTACCATTTTACCCCCAA
1 AAAAATTCCATTTTT-ACCCT-AATTTTTCAAAAATTACCATTTTACCCCCAA
83889 GTATCCAAAA
Statistics
Matches: 188, Mismatches: 26, Indels: 28
0.78 0.11 0.12
Matches are distributed among these distances:
56 1 0.01
57 41 0.22
58 41 0.22
59 95 0.51
60 10 0.05
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (56 bp):
AAAAATTCCATTTTTACCCTAATTTTTCAAAAATTACCATTTTACCCCCAACTTCT
Done.