Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 99 of 125
Found at i:29840757 original size:22 final size:22
Alignment explanation
Indices: 29840701--29840758 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
29840691 ACAATAACAC
* *
29840701 CAAAATAGTAGTAATATAATAA
1 CAAAATAGTAGCAAAATAATAA
**
29840723 CAAAATAACAGCAAAATAATAA
1 CAAAATAGTAGCAAAATAATAA
29840745 CAAAATAGTAGCAA
1 CAAAATAGTAGCAA
29840759 TTTTTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.62, C:0.10, G:0.09, T:0.19
Consensus pattern (22 bp):
CAAAATAGTAGCAAAATAATAA
Found at i:29842246 original size:18 final size:18
Alignment explanation
Indices: 29842223--29842265 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29842213 GTTCAAAGAG
29842223 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
29842241 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
29842259 TAATTAA
1 TAATTAA
29842266 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:29850387 original size:6 final size:7
Alignment explanation
Indices: 29850371--29850398 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
29850361 TAATCCACGC
29850371 TTTTTAT
1 TTTTTAT
29850378 TTTTTAT
1 TTTTTAT
29850385 TTTTTAT
1 TTTTTAT
29850392 TTTTTAT
1 TTTTTAT
29850399 ACATCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:29859596 original size:88 final size:89
Alignment explanation
Indices: 29859446--29859611 Score: 282
Period size: 88 Copynumber: 1.9 Consensus size: 89
29859436 ACAGTACACT
* * *
29859446 AGAGGTGATAAAATTCATTTAAAAACTGGCAAATTTGCACTAATGACATTCCTCTGGAGTGAGGT
1 AGAGGTGATAAAATGCATTTAAAAAATAGCAAATTTGCACTAATGACATTCCTCTGGAGTGAGGT
29859511 TGAGCAAGTCAACTTCAAAGACTC
66 TGAGCAAGTCAACTTCAAAGACTC
29859535 AGAGGTGAT-AAATGCATTTAAAAAATAGCAAATTTG-ACTAATGACATTCCTCTTGGAGTGAGG
1 AGAGGTGATAAAATGCATTTAAAAAATAGCAAATTTGCACTAATGACATTCCTC-TGGAGTGAGG
29859598 TTGAGCAAGTCAAC
65 TTGAGCAAGTCAAC
29859612 CATTCATTAC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
87 16 0.22
88 48 0.66
89 9 0.12
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (89 bp):
AGAGGTGATAAAATGCATTTAAAAAATAGCAAATTTGCACTAATGACATTCCTCTGGAGTGAGGT
TGAGCAAGTCAACTTCAAAGACTC
Found at i:29864276 original size:16 final size:16
Alignment explanation
Indices: 29864252--29864283 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29864242 CATAAGATTT
*
29864252 GGAAGAACAATAAAAA
1 GGAAAAACAATAAAAA
29864268 GGAAAAACAATAAAAA
1 GGAAAAACAATAAAAA
29864284 AAAGGATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (16 bp):
GGAAAAACAATAAAAA
Found at i:29867884 original size:22 final size:22
Alignment explanation
Indices: 29867850--29867896 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
29867840 TGAGATAAAG
29867850 AAAAACTCCAAGTATCAAATTGA
1 AAAAACTCCAAGTATCAAATT-A
* *
29867873 AAAAACT-TAAGTATCACATTA
1 AAAAACTCCAAGTATCAAATTA
29867894 AAA
1 AAA
29867897 CATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 7 0.32
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAACTCCAAGTATCAAATTA
Found at i:29869161 original size:31 final size:31
Alignment explanation
Indices: 29869117--29869175 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
29869107 TAATTTTTTT
*
29869117 AAGTACATAGACTAA-ATCTAAAATTTTATCA
1 AAGTACAGAGACTAACATC-AAAATTTTATCA
*
29869148 AAGTACAGGGACTAACATCAAAATTTTA
1 AAGTACAGAGACTAACATCAAAATTTTA
29869176 ACCTTTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (31 bp):
AAGTACAGAGACTAACATCAAAATTTTATCA
Found at i:29871613 original size:29 final size:30
Alignment explanation
Indices: 29871561--29871625 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
29871551 TAGCTTATAT
29871561 TTTTATAATTTTTAAAAGATTAAA-TCTAA
1 TTTTATAATTTTTAAAAGATTAAAGTCTAA
* *
29871590 TTTTATAATTTTTAAAGGGA-TAAAGTGTAA
1 TTTTATAATTTTTAAA-AGATTAAAGTCTAA
29871620 TTTTAT
1 TTTTAT
29871626 TTTTATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTTATAATTTTTAAAAGATTAAAGTCTAA
Found at i:29879691 original size:21 final size:22
Alignment explanation
Indices: 29879650--29879694 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
29879640 TATAAGTTTT
29879650 ATATTTTTTTAATTTTTTAAAA
1 ATATTTTTTTAATTTTTTAAAA
29879672 ATATTTTTTTAA-TTTTTAAAA
1 ATATTTTTTTAATTTTTTAAAA
29879693 AT
1 AT
29879695 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATTTTTTTAATTTTTTAAAA
Found at i:29880453 original size:63 final size:63
Alignment explanation
Indices: 29880343--29880503 Score: 227
Period size: 63 Copynumber: 2.6 Consensus size: 63
29880333 TAAAATGTCC
* * * * * *
29880343 ATTGTAGTAATTGTACTTT--GAAAATATCCAATGTGGTAGCTAAACTATCAATATGTGTTTT
1 ATTGTAGTACTTGTACTTTCATAAAATGTCTAATGTGATACCTAAACTATCAATATGTGTTTT
* * *
29880404 ATTGTGGTACTTGTACTTTCATAAAATGTCTAGTGTGATACCTAAACTATTAATATGTGTTTT
1 ATTGTAGTACTTGTACTTTCATAAAATGTCTAATGTGATACCTAAACTATCAATATGTGTTTT
29880467 ATTGTAGTACTTGTACTTTCATAAAATGTCTAATGTG
1 ATTGTAGTACTTGTACTTTCATAAAATGTCTAATGTG
29880504 GTACTTGAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
61 17 0.20
63 70 0.80
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (63 bp):
ATTGTAGTACTTGTACTTTCATAAAATGTCTAATGTGATACCTAAACTATCAATATGTGTTTT
Found at i:29880516 original size:31 final size:31
Alignment explanation
Indices: 29880406--29880523 Score: 89
Period size: 31 Copynumber: 3.8 Consensus size: 31
29880396 TGTGTTTTAT
* *
29880406 TGTGGTACTTGTACTTTCATAAAATGTCTAG
1 TGTGGTACTTGAACTTTCATAAAATGTCTAA
* * * * ** * *
29880437 TGTGATACCTAAACTATTAAT-ATGTGTTTTAT
1 TGTGGTACTTGAACT-TTCATAAAATG-TCTAA
* *
29880469 TGTAGTACTTGTACTTTCATAAAATGTCTAA
1 TGTGGTACTTGAACTTTCATAAAATGTCTAA
29880500 TGTGGTACTTGAACTTT-A-AAAATG
1 TGTGGTACTTGAACTTTCATAAAATG
29880524 CCCATGTGAT
Statistics
Matches: 63, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
29 6 0.10
30 1 0.02
31 36 0.57
32 20 0.32
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (31 bp):
TGTGGTACTTGAACTTTCATAAAATGTCTAA
Found at i:29891943 original size:19 final size:20
Alignment explanation
Indices: 29891916--29891958 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
29891906 TATTTAATTT
*
29891916 ATAATTATTTTATA-ATAAA
1 ATAAATATTTTATATATAAA
*
29891935 ATAAATATTTTATATTTAAA
1 ATAAATATTTTATATATAAA
29891955 ATAA
1 ATAA
29891959 GAAAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATATTTTATATATAAA
Found at i:29891957 original size:25 final size:24
Alignment explanation
Indices: 29891920--29891966 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
29891910 TAATTTATAA
*
29891920 TTATTTTATAATAA-AATAAATATT
1 TTATTTTAAAATAAGAA-AAATATT
29891944 TTATATTTAAAATAAGAAAAATA
1 TTAT-TTTAAAATAAGAAAAATA
29891967 ACTTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 14 0.70
26 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATTTTAAAATAAGAAAAATATT
Found at i:29909655 original size:47 final size:49
Alignment explanation
Indices: 29909584--29909679 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
29909574 ACAATATGAA
* *
29909584 CATATTTAAAGATAGCAAATAAGCTTTAGCA-AGTCAGTGAAATCACAG
1 CATATTGAAAGATAGCAAATAAGCTTTAGCACACTCAGTGAAATCACAG
* *
29909632 CATATTGAAAGA-CGCAAATAAGCTTTAGCACTACTGAGTGAAATCACA
1 CATATTGAAAGATAGCAAATAAGCTTTAGCAC-ACTCAGTGAAATCACA
29909680 TGCCTTGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 17 0.40
48 11 0.26
49 14 0.33
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (49 bp):
CATATTGAAAGATAGCAAATAAGCTTTAGCACACTCAGTGAAATCACAG
Found at i:29911859 original size:29 final size:28
Alignment explanation
Indices: 29911822--29911892 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
29911812 TTCTTTTTGA
*
29911822 ATTTATTTTATTTAAGTTCTGATAAAACG
1 ATTT-TTTTATTTAAATTCTGATAAAACG
* *
29911851 GTGTTTTTT-TGGTAAATTCTGATAAAACG
1 AT-TTTTTTAT-TTAAATTCTGATAAAACG
*
29911880 ATTTTATTATTTA
1 ATTTTTTTATTTA
29911893 TAATAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 8 0.24
29 23 0.70
30 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.51
Consensus pattern (28 bp):
ATTTTTTTATTTAAATTCTGATAAAACG
Found at i:29912390 original size:4 final size:4
Alignment explanation
Indices: 29912346--29912417 Score: 72
Period size: 4 Copynumber: 18.0 Consensus size: 4
29912336 TACTTGGCCA
* * * * * * * *
29912346 TATG TATT TATG GATG GATG GATG GATG GATG GATG GATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29912394 TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG
29912418 CATGCATGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (4 bp):
TATG
Found at i:29917790 original size:37 final size:37
Alignment explanation
Indices: 29917749--29917821 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
29917739 TAAATACAAT
* ** * *
29917749 ATTATATTTATAATTGGTATTTTATTTTATTAAAAAA
1 ATTATATCTATAATTGACATTTTATCTTATCAAAAAA
29917786 ATTATATCTATAATTGACATTTTATCTTATCAAAAA
1 ATTATATCTATAATTGACATTTTATCTTATCAAAAA
29917822 CACTTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (37 bp):
ATTATATCTATAATTGACATTTTATCTTATCAAAAAA
Found at i:29919548 original size:11 final size:11
Alignment explanation
Indices: 29919521--29919555 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
29919511 AAATTTAATG
29919521 ATTTTTTTA-A
1 ATTTTTTTATA
*
29919531 ATATTTTTATA
1 ATTTTTTTATA
29919542 ATTTTTTTATA
1 ATTTTTTTATA
29919553 ATT
1 ATT
29919556 CTATAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTTTTTTATA
Found at i:29919731 original size:32 final size:32
Alignment explanation
Indices: 29919695--29919768 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
29919685 GACATGACAC
* *
29919695 TATCACATC-GACCTTTAATGATAACATAGAAT
1 TATCACATCAG-CCATTAATGATAACATAAAAT
* * *
29919727 TATCACCTCAGCGATTAATGATGACATAAAAT
1 TATCACATCAGCCATTAATGATAACATAAAAT
29919759 TATCACATCA
1 TATCACATCA
29919769 ATAATGAGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 34 0.97
33 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (32 bp):
TATCACATCAGCCATTAATGATAACATAAAAT
Found at i:29920871 original size:18 final size:18
Alignment explanation
Indices: 29920848--29920884 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29920838 ACGCTTTTTC
* *
29920848 TCTGCCTTGTGGTACGTT
1 TCTGCCTTATGGCACGTT
29920866 TCTGCCTTATGGCACGTT
1 TCTGCCTTATGGCACGTT
29920884 T
1 T
29920885 TCGTATACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.24, G:0.24, T:0.43
Consensus pattern (18 bp):
TCTGCCTTATGGCACGTT
Found at i:29930832 original size:20 final size:21
Alignment explanation
Indices: 29930795--29930853 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
29930785 TATACTTAAT
*
29930795 AAAA-ATTCAAAAAA-TCATA
1 AAAATATTAAAAAAATTCATA
*
29930814 AAAATATT-TAAAAATTCATA
1 AAAATATTAAAAAAATTCATA
29930834 AAAATATTAAAAAAATTCAT
1 AAAATATTAAAAAAATTCAT
29930854 GTCAATAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.26
20 16 0.46
21 10 0.29
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATATTAAAAAAATTCATA
Found at i:29930838 original size:10 final size:10
Alignment explanation
Indices: 29930793--29930853 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
29930783 CGTATACTTA
29930793 ATAAAAATTC
1 ATAAAAATTC
29930803 A-AAAAA-TC
1 ATAAAAATTC
29930811 ATAAAAATAT-
1 ATAAAAAT-TC
*
29930821 TTAAAAATTC
1 ATAAAAATTC
*
29930831 ATAAAAATATT
1 ATAAAAAT-TC
*
29930842 AAAAAAATTC
1 ATAAAAATTC
29930852 AT
1 AT
29930854 GTCAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
8 3 0.08
9 11 0.28
10 17 0.43
11 9 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAAAATTC
Found at i:29939230 original size:8 final size:8
Alignment explanation
Indices: 29939217--29939241 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29939207 AAATGGGAAG
29939217 GAAAGAGA
1 GAAAGAGA
29939225 GAAAGAGA
1 GAAAGAGA
29939233 GAAAGAGA
1 GAAAGAGA
29939241 G
1 G
29939242 TGGGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (8 bp):
GAAAGAGA
Found at i:29947025 original size:17 final size:16
Alignment explanation
Indices: 29947005--29947059 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
29946995 AAAAAATAAT
29947005 AATTAGAATATATATGA
1 AATTAGAATATATA-GA
29947022 AATTAGAA-AT-TA-A
1 AATTAGAATATATAGA
* *
29947035 AATTAAAATATACAGGA
1 AATTAGAATATATA-GA
29947052 AATTAGAA
1 AATTAGAA
29947060 ATTAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 8 0.26
14 2 0.06
15 3 0.10
16 2 0.06
17 16 0.52
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (16 bp):
AATTAGAATATATAGA
Found at i:29947045 original size:30 final size:30
Alignment explanation
Indices: 29947005--29947113 Score: 121
Period size: 30 Copynumber: 3.6 Consensus size: 30
29946995 AAAAAATAAT
* * *
29947005 AATTAGAATATATATGAAATTAGAAATTAA
1 AATTAAAATATAAACGAAATTAGAAATTAA
* *
29947035 AATTAAAATATACAGGAAATTAGAAATTAA
1 AATTAAAATATAAACGAAATTAGAAATTAA
* * *
29947065 ATTTAAAATAAAAACGAAATTACAAATTAA
1 AATTAAAATATAAACGAAATTAGAAATTAA
*
29947095 ATTTAAAA-AGTAAACGAAA
1 AATTAAAATA-TAAACGAAA
29947114 AAAATCAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 1 0.01
30 68 0.99
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.28
Consensus pattern (30 bp):
AATTAAAATATAAACGAAATTAGAAATTAA
Found at i:29947630 original size:24 final size:23
Alignment explanation
Indices: 29947589--29947654 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
29947579 CCTCGTAATC
* **
29947589 GGGCTCGTCTGCGGGCTCATCCGT
1 GGGCTCGTCT-CGAGCTCATCAAT
*
29947613 GGGCTCGTACTCGAGCTCGTCAAT
1 GGGCTCGT-CTCGAGCTCATCAAT
*
29947637 GGGCTCATCCTCGAGCTC
1 GGGCTCGT-CTCGAGCTC
29947655 TGAATCTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.11, C:0.33, G:0.32, T:0.24
Consensus pattern (23 bp):
GGGCTCGTCTCGAGCTCATCAAT
Found at i:29949424 original size:22 final size:22
Alignment explanation
Indices: 29949399--29949459 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
29949389 AATTGGGGTG
* *
29949399 TTGGTGAGCTGGAATTTCGATT
1 TTGGTGAGTTGAAATTTCGATT
*
29949421 TTGGTGAGTTGAAATTTCGGTT
1 TTGGTGAGTTGAAATTTCGATT
*
29949443 TAGGTGAGTTGAAATTT
1 TTGGTGAGTTGAAATTT
29949460 GGGTGGTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.43
Consensus pattern (22 bp):
TTGGTGAGTTGAAATTTCGATT
Found at i:29949659 original size:45 final size:44
Alignment explanation
Indices: 29949597--29949746 Score: 116
Period size: 45 Copynumber: 3.4 Consensus size: 44
29949587 ATTTAAATAT
29949597 TAAAATTTGGTAAATAATATATTGTCAAATTAACACATTATTTGA
1 TAAAATTT-GTAAATAATATATTGTCAAATTAACACATTATTTGA
* *** *
29949642 TAAAATTTGTAATATAATAATAATCTTTTTTATTTA-A-A-TA--T--
1 TAAAATTTGTAA-ATAAT-AT-AT-TGTCAAATTAACACATTATTTGA
* *
29949683 TAAAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGA
1 TAAAATTTG-TAAATAATATATTGTCAAATTAACACATTATTTGA
*
29949728 TAAAATTTATAATATAATA
1 TAAAATTTGTAA-ATAATA
29949747 ATAACTTTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
38 5 0.06
39 3 0.04
40 2 0.03
41 16 0.21
42 3 0.04
43 2 0.03
44 7 0.09
45 28 0.36
46 3 0.04
47 3 0.04
48 6 0.08
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (44 bp):
TAAAATTTGTAAATAATATATTGTCAAATTAACACATTATTTGA
Found at i:29949688 original size:86 final size:85
Alignment explanation
Indices: 29949552--29950105 Score: 841
Period size: 86 Copynumber: 6.5 Consensus size: 85
29949542 TAAATTTAAA
* * *
29949552 ATTTGATAAAAATTATAATATAATAGTAA-TTTTTAATTTAAATATTAAAATTTGGTAAATAATA
1 ATTTGATAAAAATTATAATATAATAATAACTTTTTTATTTAAATATTAAAATTTGATAAATAATA
*
29949616 TATTGTCAAATTAACACATT
66 TATTGTCAAATCAACACATT
* *
29949636 ATTTGATAAAATTTGTAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTGATAAATAAT
1 ATTTGATAAAAATTATAATATAATAATAA-CTTTTTTATTTAAATATTAAAATTTGATAAATAAT
*
29949701 GTATTGTCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
*
29949722 ATTTGATAAAATTTATAATATAATAATAACTTTTTTTATTTAAATATTAAAATTTGATAAATAAT
1 ATTTGATAAAAATTATAATATAATAATAAC-TTTTTTATTTAAATATTAAAATTTGATAAATAAT
* * *
29949787 ATACTATCAAATCAATACATT
65 ATATTGTCAAATCAACACATT
* * *
29949808 ATTTGATAAAAATTGTAATATAATAAT-A--TTTTTATTTAAATATTAAAATTTGGTAAATAATG
1 ATTTGATAAAAATTATAATATAATAATAACTTTTTTATTTAAATATTAAAATTTGATAAATAATA
*
29949870 TATTGTAAAATCAACACATT
66 TATTGTCAAATCAACACATT
29949890 ATTTGATAAAAATTATAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTGATAAATAAT
1 ATTTGATAAAAATTATAATATAATAATAA-CTTTTTTATTTAAATATTAAAATTTGATAAATAAT
* *
29949955 GTATTATCAAATCAACACATT
65 ATATTGTCAAATCAACACATT
*
29949976 ATTTGATAAAAATTATAATATAATAATAA-TTTTTTATTTAAATATTAAAATTTGGTAAATAATA
1 ATTTGATAAAAATTATAATATAATAATAACTTTTTTATTTAAATATTAAAATTTGATAAATAATA
29950040 TATTGTCAAATCAACACATT
66 TATTGTCAAATCAACACATT
* *
29950060 ATTTGATATAAATTGA-AATATAATAATAATCCTTTTTATTTAAATA
1 ATTTGATAAAAATT-ATAATATAATAATAA-CTTTTTTATTTAAATA
29950106 ATGTTAAATT
Statistics
Matches: 431, Mismatches: 29, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
82 74 0.17
83 1 0.00
84 104 0.24
85 3 0.01
86 249 0.58
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (85 bp):
ATTTGATAAAAATTATAATATAATAATAACTTTTTTATTTAAATATTAAAATTTGATAAATAATA
TATTGTCAAATCAACACATT
Found at i:29949899 original size:168 final size:170
Alignment explanation
Indices: 29949552--29950105 Score: 886
Period size: 168 Copynumber: 3.3 Consensus size: 170
29949542 TAAATTTAAA
* * *
29949552 ATTTGATAAAAATTATAATATAATAGTAA--TTTTTAATTTAAATATTAAAATTTGGTAAATAAT
1 ATTTGATAAAAATTATAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTGATAAATAAT
* * *
29949615 ATATTGTCAAATTAACACATTATTTGATAAAATTTGTAATATAATAATAATCTTTTTTATTTAAA
66 ATATTATCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAA
*
29949680 TATTAAAATTTGATAAATAATGTATTGTCAAATCAACACATT
129 TATTAAAATTTGGTAAATAATGTATTGTCAAATCAACACATT
*
29949722 ATTTGATAAAATTTATAATATAATAATAA-CTTTTTTTATTTAAATATTAAAATTTGATAAATAA
1 ATTTGATAAAAATTATAATATAATAATAATC-TTTTTTATTTAAATATTAAAATTTGATAAATAA
* *
29949786 TATACTATCAAATCAATACATTATTTGATAAAAATTGTAATATAATAAT-A-TTTTTATTTAAAT
65 TATATTATCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAAT
*
29949849 ATTAAAATTTGGTAAATAATGTATTGTAAAATCAACACATT
130 ATTAAAATTTGGTAAATAATGTATTGTCAAATCAACACATT
29949890 ATTTGATAAAAATTATAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTGATAAATAAT
1 ATTTGATAAAAATTATAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTGATAAATAAT
* *
29949955 GTATTATCAAATCAACACATTATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATA
66 ATATTATCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATA
*
29950020 TTAAAATTTGGTAAATAATATATTGTCAAATCAACACATT
131 TTAAAATTTGGTAAATAATGTATTGTCAAATCAACACATT
* *
29950060 ATTTGATATAAATTGA-AATATAATAATAATCCTTTTTATTTAAATA
1 ATTTGATAAAAATT-ATAATATAATAATAATCTTTTTTATTTAAATA
29950106 ATGTTAAATT
Statistics
Matches: 358, Mismatches: 20, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
168 158 0.44
169 2 0.01
170 121 0.34
171 2 0.01
172 75 0.21
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (170 bp):
ATTTGATAAAAATTATAATATAATAATAATCTTTTTTATTTAAATATTAAAATTTGATAAATAAT
ATATTATCAAATCAACACATTATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATA
TTAAAATTTGGTAAATAATGTATTGTCAAATCAACACATT
Found at i:29950266 original size:16 final size:16
Alignment explanation
Indices: 29950230--29950264 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
29950220 TTTATTTTTC
*
29950230 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
29950246 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
29950263 AA
1 AA
29950265 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:29954125 original size:26 final size:28
Alignment explanation
Indices: 29954092--29954148 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
29954082 GACCAACACC
29954092 AAAAATTTG-AA-TTTTTTATCTGACAA
1 AAAAATTTGAAATTTTTTTATCTGACAA
29954118 AAAAATTTGAAATTTTTTTATCTGACAA
1 AAAAATTTGAAATTTTTTTATCTGACAA
29954146 AAA
1 AAA
29954149 GAGGTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 9 0.31
27 2 0.07
28 18 0.62
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (28 bp):
AAAAATTTGAAATTTTTTTATCTGACAA
Found at i:29954222 original size:60 final size:59
Alignment explanation
Indices: 29954117--29954324 Score: 238
Period size: 60 Copynumber: 3.4 Consensus size: 59
29954107 TTATCTGACA
* * * * *
29954117 AAAAAATTTGAAATTTTTTTATCTGACAAAAAGAGGTTGTTGACCATTGCATGATCAACACC
1 AAAAAATTT--AATTTTTTTATCAGATAAAAAG-GGGTGTCGACCATTGCATGGTCAACACC
*
29954179 AAAAAATTTAATTTTTTTATCAGATAAATAGTGGGTGTCGACCATTGCATGGTCAACACC
1 AAAAAATTTAATTTTTTTATCAGATAAAAAG-GGGTGTCGACCATTGCATGGTCAACACC
** * * *
29954239 AAAAAAATTTAAAATTTTTATCTGA-AAAAAGGGAGTGTCGGCTATTGCATGGTCAACACC
1 -AAAAAATTTAATTTTTTTATCAGATAAAAAGGG-GTGTCGACCATTGCATGGTCAACACC
* *
29954299 AAAAAATTTGATTTTTTTATTAGATA
1 AAAAAATTTAATTTTTTTATCAGATA
29954325 CATGACCAAC
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.17
60 74 0.59
61 21 0.17
62 9 0.07
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (59 bp):
AAAAAATTTAATTTTTTTATCAGATAAAAAGGGGTGTCGACCATTGCATGGTCAACACC
Found at i:29954417 original size:97 final size:99
Alignment explanation
Indices: 29954232--29954420 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 99
29954222 ATTGCATGGT
* *
29954232 CAACACCAAAAAAATTTAAAATTTTTATCTGAAAAAAGGGAGTGTCGGCTATTGCATGGTCAACA
1 CAACACCAAAAAAATTTAAAATTTTTATCTGAAAAAAGGGAGTGTCAGCTATTGCATGGTAAACA
29954297 CCAAAAAATTTGATTTTTTTATTAGATACATGAC
66 CCAAAAAATTTGATTTTTTTATTAGATACATGAC
*
29954331 CAACACTAAAAAAA-TT-AAATTTCTTATCTGACAAAAAGGG-GTGTCAGCTATTGCAAT-G-AA
1 CAACACCAAAAAAATTTAAAATTT-TTATCTGA-AAAAAGGGAGTGTCAGCTATTGC-ATGGTAA
29954391 ACACTC-AAAAATTTGATTTTTTTATTAGAT
63 ACAC-CAAAAAATTTGATTTTTTTATTAGAT
29954421 TAAAAGGATG
Statistics
Matches: 83, Mismatches: 3, Indels: 10
0.86 0.03 0.10
Matches are distributed among these distances:
97 35 0.42
98 25 0.30
99 23 0.28
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (99 bp):
CAACACCAAAAAAATTTAAAATTTTTATCTGAAAAAAGGGAGTGTCAGCTATTGCATGGTAAACA
CCAAAAAATTTGATTTTTTTATTAGATACATGAC
Found at i:29960879 original size:20 final size:20
Alignment explanation
Indices: 29960854--29960894 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
29960844 AATGTCACAT
*
29960854 AAATTTTTA-AAAT-GTTTA
1 AAATATTTATAAATAGTTTA
29960872 AAATATTTATAAATAGTTTA
1 AAATATTTATAAATAGTTTA
29960892 AAA
1 AAA
29960895 CATAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATATTTATAAATAGTTTA
Found at i:29961449 original size:20 final size:21
Alignment explanation
Indices: 29961412--29961450 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29961402 TTGGTCGTGA
*
29961412 CTCATGATTTTTCATTAGCAG
1 CTCATGATTTTGCATTAGCAG
*
29961433 CTCATTATTTTGC-TTAGC
1 CTCATGATTTTGCATTAGC
29961451 CACAAGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (21 bp):
CTCATGATTTTGCATTAGCAG
Found at i:29962706 original size:27 final size:28
Alignment explanation
Indices: 29962652--29962706 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
29962642 CAATATTTTT
*
29962652 AAATTATTTTCATTAATTTAAATATAAA
1 AAATTATTTTCATTAATATAAATATAAA
*
29962680 AAATCTATTTT-A-TAATATAAATTTAAA
1 AAAT-TATTTTCATTAATATAAATATAAA
29962707 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 5 0.21
29 6 0.25
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (28 bp):
AAATTATTTTCATTAATATAAATATAAA
Found at i:29968595 original size:7 final size:7
Alignment explanation
Indices: 29968583--29968615 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
29968573 TTTATTTATT
29968583 TAATAAA
1 TAATAAA
29968590 TAATAAA
1 TAATAAA
29968597 TAATAAA
1 TAATAAA
29968604 T-A-AAA
1 TAATAAA
29968609 TAATAAA
1 TAATAAA
29968616 ATTTGGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.17
6 2 0.08
7 18 0.75
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:29973133 original size:69 final size:69
Alignment explanation
Indices: 29973008--29973432 Score: 412
Period size: 69 Copynumber: 6.2 Consensus size: 69
29972998 ACCCTTTGGC
* * * * * * * *
29973008 CCTAGTTGTCATTTTAAGGTTAGCAAGCGAAGAGCCGCAACCTCCAACACAATTAGCAAGAGCAA
1 CCTAATTGTCATATTGAGGTTTGCAGGCGAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAA
29973073 AGCT
66 AGCT
* * *
29973077 CCTAATTGTCATTTTGAGGTTTGCAGGCGAAGAGTCGCAACCTCCAATACAGTTAGCGGGAGCAA
1 CCTAATTGTCATATTGAGGTTTGCAGGCGAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAA
29973142 AGCT
66 AGCT
* * * * *
29973146 GCC-AACTGTCATATTGAGGTTCGCAGGCAAAGAGCCGCAACCTCTAATATAGTTAGCGAGAGCA
1 -CCTAATTGTCATATTGAGGTTTGCAGGCGAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCA
29973210 AAGCT
65 AAGCT
* ** **
29973215 CCCAATTGTCATATTGAGGTTTATAGGCGAAGAGTTGCAACCTCCAATACAGTTAGCGAGAGCAA
1 CCTAATTGTCATATTGAGGTTTGCAGGCGAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAA
29973280 AGCT
66 AGCT
** * * * * * *
29973284 -CTCAGCTGTCATATTAAAGTTTGCAGGCAAAAAGCCGTAACCTCCAATACAGTTAGTGAGAGCA
1 CCT-AATTGTCATATTGAGGTTTGCAGGCGAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCA
29973348 AAG-T
65 AAGCT
* * * ** * * * *
29973352 TCTCAACTGTCATATT-AAGTTT-CACCGATGAAGAGCCGTAACC-CCTAACATAGTTAGCAAGA
1 CCT-AATTGTCATATTGAGGTTTGCA--GGCGAAGAGCCGCAACCTCC-AATACAGTTAGCGAGA
29973414 GCAAAGCT
62 GCAAAGCT
29973422 CCTAATTGTCA
1 CCTAATTGTCA
29973433 CTTTAAATTT
Statistics
Matches: 298, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
67 2 0.01
68 12 0.04
69 279 0.94
70 5 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (69 bp):
CCTAATTGTCATATTGAGGTTTGCAGGCGAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAA
AGCT
Found at i:29973262 original size:138 final size:138
Alignment explanation
Indices: 29973014--29973367 Score: 467
Period size: 138 Copynumber: 2.6 Consensus size: 138
29973004 TGGCCCTAGT
* * * * * *
29973014 TGTCATTTTAAGGTTAGCAAGCGAAGAGCCGCAACCTCCAACACAATTAGCAAGAGCAAAGCTCC
1 TGTCATATTAAGGTTAGCAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTCC
* * * *
29973079 TAATTGTCATTTTGAGGTTTGCAGGCGAAGAGTCGCAACCTCCAATACAGTTAGCGGGAGCAAAG
66 CAATTGTCATATTGAGGTTTACAGGCGAAGAGTCGCAACCTCCAATACAGTTAGCGAGAGCAAAG
29973144 CTGC-CAAC
131 CT-CTCAAC
* * * *
29973152 TGTCATATTGAGGTTCGCAGGCAAAGAGCCGCAACCTCTAATATAGTTAGCGAGAGCAAAGCTCC
1 TGTCATATTAAGGTTAGCAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTCC
* *
29973217 CAATTGTCATATTGAGGTTTATAGGCGAAGAGTTGCAACCTCCAATACAGTTAGCGAGAGCAAAG
66 CAATTGTCATATTGAGGTTTACAGGCGAAGAGTCGCAACCTCCAATACAGTTAGCGAGAGCAAAG
*
29973282 CTCTCAGC
131 CTCTCAAC
* * * * * * *
29973290 TGTCATATTAAAGTTTGCAGGCAAAAAGCCGTAACCTCCAATACAGTTAGTGAGAGCAAAGTTCT
1 TGTCATATTAAGGTTAGCAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTCC
*
29973355 CAACTGTCATATT
66 CAATTGTCATATT
29973368 AAGTTTCACC
Statistics
Matches: 187, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 1 0.01
138 186 0.99
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (138 bp):
TGTCATATTAAGGTTAGCAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTCC
CAATTGTCATATTGAGGTTTACAGGCGAAGAGTCGCAACCTCCAATACAGTTAGCGAGAGCAAAG
CTCTCAAC
Found at i:29973388 original size:207 final size:207
Alignment explanation
Indices: 29973034--29973432 Score: 505
Period size: 207 Copynumber: 1.9 Consensus size: 207
29973024 AGGTTAGCAA
* * * *
29973034 GCGAAGAGCCGCAACCTCCAACACAATTAGCAAGAGCAAAGCTCCTAATTGTCATTTTGAGGTTT
1 GCGAAGAGCCGCAACCTCCAACACAATTAGCAAGAGCAAAGCTCCTAACTGTCATATTAAAGTTT
* * * * *
29973099 GCAGGCGAAGAGTCGCAACCTCCAATACAGTTAGCGGGAGCAAAGCTGCCAACTGTCATATTGAG
66 GCAGGCAAAAAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTGCCAACTGTCATATTAAG
* * * * *
29973164 GTTCGCAGGCAAAGAGCCGCAACCTCTAATATAGTTAGCGAGAGCAAAGCTCCCAATTGTCATAT
131 GTTCACAGACAAAGAGCCGCAACCCCTAACATAGTTAGCAAGAGCAAAGCTCCCAATTGTCATAT
29973229 TGAGGTTTATAG
196 TGAGGTTTATAG
** * * * *
29973241 GCGAAGAGTTGCAACCTCCAATACAGTTAGCGAGAGCAAAGCT-CTCAGCTGTCATATTAAAGTT
1 GCGAAGAGCCGCAACCTCCAACACAATTAGCAAGAGCAAAGCTCCT-AACTGTCATATTAAAGTT
* * *
29973305 TGCAGGCAAAAAGCCGTAACCTCCAATACAGTTAGTGAGAGCAAAG-TTCTCAACTGTCATATTA
65 TGCAGGCAAAAAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTGC-CAACTGTCATATTA
* * ** * *
29973369 AGTTTCACCGATGAAGAGCCGTAACCCCTAACATAGTTAGCAAGAGCAAAGCTCCTAATTGTCA
129 AGGTTCACAGACAAAGAGCCGCAACCCCTAACATAGTTAGCAAGAGCAAAGCTCCCAATTGTCA
29973433 CTTTAAATTT
Statistics
Matches: 161, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
206 4 0.02
207 157 0.98
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (207 bp):
GCGAAGAGCCGCAACCTCCAACACAATTAGCAAGAGCAAAGCTCCTAACTGTCATATTAAAGTTT
GCAGGCAAAAAGCCGCAACCTCCAATACAGTTAGCGAGAGCAAAGCTGCCAACTGTCATATTAAG
GTTCACAGACAAAGAGCCGCAACCCCTAACATAGTTAGCAAGAGCAAAGCTCCCAATTGTCATAT
TGAGGTTTATAG
Found at i:29973563 original size:42 final size:42
Alignment explanation
Indices: 29973517--29973671 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 42
29973507 GCTTGCAAAT
* *
29973517 TCACATCTCAGCTCATTATTGTTAAGAAAATAGCTCGTGGAC
1 TCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGAC
* * * * * *
29973559 TCACATCCCAGCTTATTATTATTGAGAAAATAACTTGCAGAC
1 TCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGAC
*
29973601 TCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGAT
1 TCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGAC
* *
29973643 TCACATCCCAACTGATTATT-TT-AGAAAAT
1 TCACATCCCAGCTCATTATTGTTAAGAAAAT
29973672 TTACCGCAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 7 0.07
41 2 0.02
42 87 0.91
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (42 bp):
TCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGAC
Found at i:29973647 original size:84 final size:82
Alignment explanation
Indices: 29973502--29973671 Score: 250
Period size: 84 Copynumber: 2.0 Consensus size: 82
29973492 CCTAATTCTG
* * * *
29973502 AAATAGCTTGCAAATTCACATCTCAGCTCATTATTGTTAAGAAAATAGCTCGTGGACTCACATCC
1 AAATAACTTGCAAACTCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGACTCACATCC
* *
29973567 CAGCTTATTATTATTGAGA
66 CAACTGATTATT-TT-AGA
* *
29973586 AAATAACTTGCAGACTCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGATTCACATCC
1 AAATAACTTGCAAACTCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGACTCACATCC
29973651 CAACTGATTATTTTAGA
66 CAACTGATTATTTTAGA
29973668 AAAT
1 AAAT
29973672 TTACCGCAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 7 0.09
83 2 0.03
84 69 0.88
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (82 bp):
AAATAACTTGCAAACTCACATCCCAGCTCATTATTGTTAAGAAAATAGCTCGCGGACTCACATCC
CAACTGATTATTTTAGA
Found at i:29974939 original size:130 final size:130
Alignment explanation
Indices: 29974706--29974968 Score: 454
Period size: 130 Copynumber: 2.0 Consensus size: 130
29974696 ACGGTGAGAG
* * *
29974706 CTACATGATCCACCCTCCTCTTGTTGTGGCGTTCTAATTGTGCACTATTTCCCTCCCTCTCACTA
1 CTACATAATCCACCCTCCTCTTGCTGTGGCGTTCCAATTGTGCACTATTTCCCTCCCTCTCACTA
* *
29974771 ATAGGGTCAATGCACAAAGCCCAATAATGGTCTTATGCTTATTGCACCCACTACTTATCAAAGCC
66 ATAGGGTCAATGCACAAAGCCCAACAATAGTCTTATGCTTATTGCACCCACTACTTATCAAAGCC
* *
29974836 CTACATAATCCACCCTCCTCTTGCTGTGGCGTTCCAATTGTGCATTATTTCCCTCCCTCTCACTG
1 CTACATAATCCACCCTCCTCTTGCTGTGGCGTTCCAATTGTGCACTATTTCCCTCCCTCTCACTA
*
29974901 ATAGGGTCAATGCGCAAAGCCCAACAATAGTCTTATGCTTATTGCACCCACTACTTATCAAAGCC
66 ATAGGGTCAATGCACAAAGCCCAACAATAGTCTTATGCTTATTGCACCCACTACTTATCAAAGCC
29974966 CTA
1 CTA
29974969 ACATCCATTG
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.31
Consensus pattern (130 bp):
CTACATAATCCACCCTCCTCTTGCTGTGGCGTTCCAATTGTGCACTATTTCCCTCCCTCTCACTA
ATAGGGTCAATGCACAAAGCCCAACAATAGTCTTATGCTTATTGCACCCACTACTTATCAAAGCC
Found at i:29984457 original size:2 final size:2
Alignment explanation
Indices: 29984452--29984491 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
29984442 TTTCACACAG
29984452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29984492 GTTTACGAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29994545 original size:16 final size:17
Alignment explanation
Indices: 29994520--29994553 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29994510 GGCTTATTAT
*
29994520 TTCTTTTTCTA-TTTTA
1 TTCTTGTTCTACTTTTA
29994536 TTCTTGTTCTACTTTTA
1 TTCTTGTTCTACTTTTA
29994553 T
1 T
29994554 AATAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (17 bp):
TTCTTGTTCTACTTTTA
Found at i:29995658 original size:24 final size:24
Alignment explanation
Indices: 29995630--29995690 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
29995620 ACCATTTACC
*
29995630 CTTTCCCATTACTGTTACTGTTAT
1 CTTTCCCATTACCGTTACTGTTAT
*
29995654 CTTTCCCATTACCGTTACTGTTAC
1 CTTTCCCATTACCGTTACTGTTAT
* *
29995678 CTTGCCCGTTACC
1 CTTTCCCATTACC
29995691 CGTTGCCCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.15, C:0.33, G:0.10, T:0.43
Consensus pattern (24 bp):
CTTTCCCATTACCGTTACTGTTAT
Found at i:29995694 original size:7 final size:7
Alignment explanation
Indices: 29995682--29996163 Score: 368
Period size: 7 Copynumber: 70.4 Consensus size: 7
29995672 TGTTACCTTG
*
29995682 CCCGTTA
1 CCCGTTT
*
29995689 CCCGTTG
1 CCCGTTT
*
29995696 CCCGTTG
1 CCCGTTT
*
29995703 CCCGTTG
1 CCCGTTT
29995710 CCCGTTT
1 CCCGTTT
29995717 CCCGTTT
1 CCCGTTT
29995724 CCCGTTT
1 CCCGTTT
29995731 CCCGTTT
1 CCCGTTT
29995738 CCCGTTT
1 CCCGTTT
29995745 CCCGTTT
1 CCCGTTT
29995752 CCC-TTT
1 CCCGTTT
*
29995758 CCCCCTTT
1 -CCCGTTT
29995766 CCCG-TT
1 CCCGTTT
* *
29995772 ACTG-TT
1 CCCGTTT
* *
29995778 ACTG-TT
1 CCCGTTT
*
29995784 ACC-TTT
1 CCCGTTT
* *
29995790 CCTGTTA
1 CCCGTTT
29995797 CCTAAC-TGTT
1 CC---CGT-TT
* *
29995807 ACC-TTA
1 CCCGTTT
*
29995813 CCCGTTA
1 CCCGTTT
*
29995820 CCCGTTA
1 CCCGTTT
*
29995827 CCCGTTA
1 CCCGTTT
*
29995834 CCCGTTA
1 CCCGTTT
29995841 CCCGTTT
1 CCCGTTT
*
29995848 CCCATTT
1 CCCGTTT
*
29995855 CCCGTTA
1 CCCGTTT
*
29995862 CCCGTTA
1 CCCGTTT
29995869 CCCGTTT
1 CCCGTTT
29995876 CCCGTTT
1 CCCGTTT
29995883 CCCGTTT
1 CCCGTTT
*
29995890 CCCGTTA
1 CCCGTTT
*
29995897 CCCGTTA
1 CCCGTTT
*
29995904 CCCGTTA
1 CCCGTTT
29995911 CCCGTTT
1 CCCGTTT
29995918 CCCGTTT
1 CCCGTTT
29995925 CCCGTTT
1 CCCGTTT
29995932 CCCGTTT
1 CCCGTTT
29995939 CCCGTTT
1 CCCGTTT
29995946 CCCGTTT
1 CCCGTTT
*
29995953 CCCGTTA
1 CCCGTTT
*
29995960 CCCGTTA
1 CCCGTTT
29995967 CCCGTTT
1 CCCGTTT
29995974 CCCGTTT
1 CCCGTTT
29995981 CCCGTTT
1 CCCGTTT
29995988 CCCGTTT
1 CCCGTTT
*
29995995 CCCCATTT
1 -CCCGTTT
*
29996003 CCCGTTA
1 CCCGTTT
*
29996010 CTCG-TT
1 CCCGTTT
*
29996016 CCCCTTT
1 CCCGTTT
29996023 CCCG-TT
1 CCCGTTT
*
29996029 ACCG-TT
1 CCCGTTT
* *
29996035 ACC-ATT
1 CCCGTTT
* *
29996041 ACTG-TT
1 CCCGTTT
* *
29996047 ACTG-TT
1 CCCGTTT
*
29996053 ACC-TTT
1 CCCGTTT
29996059 CCCG-TT
1 CCCGTTT
* *
29996065 ACTG-TT
1 CCCGTTT
*
29996071 ACC-TTT
1 CCCGTTT
29996077 CCCGTTT
1 CCCGTTT
29996084 CCCGTTT
1 CCCGTTT
*
29996091 CCCGTTA
1 CCCGTTT
29996098 CCCGTTT
1 CCCGTTT
*
29996105 CCCGTTA
1 CCCGTTT
29996112 CCCGTTT
1 CCCGTTT
29996119 CCCGTTT
1 CCCGTTT
**
29996126 CCTTTTT
1 CCCGTTT
29996133 CCCGTTT
1 CCCGTTT
29996140 CCCGTTT
1 CCCGTTT
**
29996147 CCTTTTT
1 CCCGTTT
29996154 CCCGTTT
1 CCCGTTT
29996161 CCC
1 CCC
29996164 ATTACCATTT
Statistics
Matches: 407, Mismatches: 51, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
6 66 0.16
7 329 0.81
8 9 0.02
9 1 0.00
10 2 0.00
ACGTcount: A:0.07, C:0.41, G:0.13, T:0.40
Consensus pattern (7 bp):
CCCGTTT
Found at i:29995698 original size:14 final size:14
Alignment explanation
Indices: 29995682--29996219 Score: 392
Period size: 14 Copynumber: 39.0 Consensus size: 14
29995672 TGTTACCTTG
*
29995682 CCCGTTACCCGTTG
1 CCCGTTACCCGTTT
* *
29995696 CCCGTTGCCCGTTG
1 CCCGTTACCCGTTT
*
29995710 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
*
29995724 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
*
29995738 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
* * *
29995752 CCCTTTCCCCCTTT
1 CCCGTTACCCGTTT
*
29995766 CCCGTTA-CTG-TT
1 CCCGTTACCCGTTT
* *
29995778 ACTGTTA-CC-TTT
1 CCCGTTACCCGTTT
*
29995790 CCTGTTACCTAAC-TGTT
1 CCCGTTACC---CGT-TT
* *
29995807 ACC-TTACCCGTTA
1 CCCGTTACCCGTTT
*
29995820 CCCGTTACCCGTTA
1 CCCGTTACCCGTTT
29995834 CCCGTTACCCGTTT
1 CCCGTTACCCGTTT
* * *
29995848 CCCATTTCCCGTTA
1 CCCGTTACCCGTTT
29995862 CCCGTTACCCGTTT
1 CCCGTTACCCGTTT
*
29995876 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
*
29995890 CCCGTTACCCGTTA
1 CCCGTTACCCGTTT
29995904 CCCGTTACCCGTTT
1 CCCGTTACCCGTTT
*
29995918 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
*
29995932 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
* *
29995946 CCCGTTTCCCGTTA
1 CCCGTTACCCGTTT
29995960 CCCGTTACCCGTTT
1 CCCGTTACCCGTTT
*
29995974 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
* *
29995988 CCCGTTTCCCCATTT
1 CCCG-TTACCCGTTT
*
29996003 CCCGTTACTCG-TT
1 CCCGTTACCCGTTT
* *
29996016 CCCCTTTCCCG-TT
1 CCCGTTACCCGTTT
* *
29996029 ACCGTTA-CC-ATT
1 CCCGTTACCCGTTT
* * *
29996041 ACTGTTA-CTG-TT
1 CCCGTTACCCGTTT
* *
29996053 ACC-TTTCCCG-TT
1 CCCGTTACCCGTTT
* *
29996065 ACTGTTA-CC-TTT
1 CCCGTTACCCGTTT
*
29996077 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
29996091 CCCGTTACCCGTTT
1 CCCGTTACCCGTTT
29996105 CCCGTTACCCGTTT
1 CCCGTTACCCGTTT
* **
29996119 CCCGTTTCCTTTTT
1 CCCGTTACCCGTTT
*
29996133 CCCGTTTCCCGTTT
1 CCCGTTACCCGTTT
** *
29996147 CCTTTTTCCCGTTT
1 CCCGTTACCCGTTT
* *
29996161 CCCATTA-CCATTT
1 CCCGTTACCCGTTT
29996174 CCCGTTACAGTTACC-TTT
1 CCCGTTAC-----CCGTTT
*
29996192 CCCGTTACCCGTTA
1 CCCGTTACCCGTTT
*
29996206 CCCTTTACCCGTTT
1 CCCGTTACCCGTTT
29996220 GTTTCCCTTT
Statistics
Matches: 430, Mismatches: 71, Indels: 46
0.79 0.13 0.08
Matches are distributed among these distances:
11 2 0.00
12 45 0.10
13 39 0.09
14 309 0.72
15 12 0.03
16 7 0.02
17 3 0.01
18 11 0.03
19 2 0.00
ACGTcount: A:0.08, C:0.40, G:0.12, T:0.40
Consensus pattern (14 bp):
CCCGTTACCCGTTT
Found at i:29995808 original size:23 final size:23
Alignment explanation
Indices: 29995778--29995821 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
29995768 CGTTACTGTT
* *
29995778 ACTGTTACCTTTCCTGTTACCTA
1 ACTGTTACCTTACCCGTTACCTA
29995801 ACTGTTACCTTACCCGTTACC
1 ACTGTTACCTTACCCGTTACC
29995822 CGTTACCCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.34, G:0.09, T:0.39
Consensus pattern (23 bp):
ACTGTTACCTTACCCGTTACCTA
Found at i:29996066 original size:24 final size:25
Alignment explanation
Indices: 29996039--29996089 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
29996029 ACCGTTACCA
29996039 TTACTGTTA-CTGTTACC-TTTCCCG
1 TTACTGTTACCT-TTACCGTTTCCCG
*
29996063 TTACTGTTACCTTTCCCGTTTCCCG
1 TTACTGTTACCTTTACCGTTTCCCG
29996088 TT
1 TT
29996090 TCCCGTTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.10, C:0.31, G:0.12, T:0.47
Consensus pattern (25 bp):
TTACTGTTACCTTTACCGTTTCCCG
Found at i:29996074 original size:18 final size:18
Alignment explanation
Indices: 29996000--29996082 Score: 103
Period size: 18 Copynumber: 4.5 Consensus size: 18
29995990 CGTTTCCCCA
*
29996000 TTTCCCGTTACTCGTTCCCC
1 TTTCCCGTTACT-GTT-ACC
*
29996020 TTTCCCGTTACCGTTACC
1 TTTCCCGTTACTGTTACC
* * *
29996038 ATTACTGTTACTGTTACC
1 TTTCCCGTTACTGTTACC
29996056 TTTCCCGTTACTGTTACC
1 TTTCCCGTTACTGTTACC
29996074 TTTCCCGTT
1 TTTCCCGTT
29996083 TCCCGTTTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
18 40 0.74
19 3 0.06
20 11 0.20
ACGTcount: A:0.11, C:0.35, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTCCCGTTACTGTTACC
Found at i:29996218 original size:21 final size:20
Alignment explanation
Indices: 29995673--29996218 Score: 325
Period size: 21 Copynumber: 26.8 Consensus size: 20
29995663 TACCGTTACT
*
29995673 GTTA-CCTTGCCCGTTACCC
1 GTTACCCTTTCCCGTTACCC
* * *
29995692 GTTGCCCGTTGCCCGTTGCCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995713 GTTTCCCGTTTCCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995734 GTTTCCCGTTTCCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
* * *
29995755 TTTCCCCCTTTCCCGTTA-CT
1 GTT-ACCCTTTCCCGTTACCC
*
29995775 GTTACTGTTACCTTTCCTGTTACCTAAC
1 GTTAC-----CCTTTCCCGTTACC---C
*
29995803 TGTTA-CCTTACCCGTTACCC
1 -GTTACCCTTTCCCGTTACCC
*
29995823 GTTACCCGTTACCCGTTACCC
1 GTTACCC-TTTCCCGTTACCC
*
29995844 GTTTCCCATTTCCCGTTACCC
1 GTTACCC-TTTCCCGTTACCC
*
29995865 GTTACCCGTTTCCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995886 GTTTCCCGTTACCCGTTACCC
1 GTTACCC-TTTCCCGTTACCC
*
29995907 GTTACCCGTTTCCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995928 GTTTCCCGTTTCCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995949 GTTTCCCGTTACCCGTTACCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995970 GTTTCCCGTTTCCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
* *
29995991 GTTTCCCCATTTCCCGTTACTC
1 G-TTACCC-TTTCCCGTTACCC
*
29996013 GTTCCCCTTTCCCGTTA-CC
1 GTTACCCTTTCCCGTTACCC
* * * *
29996032 GTTA-CCATTACTGTTA-CT
1 GTTACCCTTTCCCGTTACCC
*
29996050 GTTA-CCTTTCCCGTTA-CT
1 GTTACCCTTTCCCGTTACCC
*
29996068 GTTA-CCTTTCCCGTTTCCC
1 GTTACCCTTTCCCGTTACCC
* * *
29996087 GTTTCCCGTTACCCGTTTCCC
1 GTTACCC-TTTCCCGTTACCC
*
29996108 GTTACCCGTTTCCCGTT-TCC
1 GTTACCC-TTTCCCGTTACCC
*
29996128 -TT----TTTCCCGTTTCCC
1 GTTACCCTTTCCCGTTACCC
* * *
29996143 GTTTCCTTTTTCCCGTTTCCC
1 GTTACC-CTTTCCCGTTACCC
* * *
29996164 ATTACCATTTCCCGTTA-CA
1 GTTACCCTTTCCCGTTACCC
29996183 GTTA-CCTTTCCCGTTACCC
1 GTTACCCTTTCCCGTTACCC
29996202 GTTACCCTTTACCCGTT
1 GTTACCCTTT-CCCGTT
29996219 TGTTTCCCTT
Statistics
Matches: 437, Mismatches: 61, Indels: 56
0.79 0.11 0.10
Matches are distributed among these distances:
14 9 0.02
15 2 0.00
16 2 0.00
18 51 0.12
19 27 0.06
20 36 0.08
21 262 0.60
22 20 0.05
23 12 0.03
24 11 0.03
25 1 0.00
29 4 0.01
ACGTcount: A:0.08, C:0.40, G:0.12, T:0.40
Consensus pattern (20 bp):
GTTACCCTTTCCCGTTACCC
Found at i:29996252 original size:20 final size:20
Alignment explanation
Indices: 29996229--29996266 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29996219 TGTTTCCCTT
*
29996229 TAAACCCTAAACCTTAAATC
1 TAAACCCTAAACCCTAAATC
*
29996249 TAAACTCTAAACCCTAAA
1 TAAACCCTAAACCCTAAA
29996267 CCTTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAACCCTAAACCCTAAATC
Found at i:29999690 original size:20 final size:20
Alignment explanation
Indices: 29999665--29999703 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29999655 ATACTGGTAA
29999665 AGCCCATTAACCAAAATTAG
1 AGCCCATTAACCAAAATTAG
29999685 AGCCCATTAACCAAAATTA
1 AGCCCATTAACCAAAATTA
29999704 AACTCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.21
Consensus pattern (20 bp):
AGCCCATTAACCAAAATTAG
Found at i:30005341 original size:15 final size:15
Alignment explanation
Indices: 30005311--30005364 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30005301 CAAATATTTG
* *
30005311 AAAATTGAAATATAA
1 AAAATTCAATTATAA
*
30005326 AAAATTCAATTTTAA
1 AAAATTCAATTATAA
*
30005341 AAGAAAT-AATTATAA
1 AA-AATTCAATTATAA
30005356 AAAATTCAA
1 AAAATTCAA
30005365 ACTCCCCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 25 0.81
16 3 0.10
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (15 bp):
AAAATTCAATTATAA
Found at i:30009818 original size:14 final size:14
Alignment explanation
Indices: 30009799--30009850 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
30009789 TTAGATGTCC
30009799 TAAAATAAATATTA
1 TAAAATAAATATTA
30009813 TAAAATAAA-ATTGA
1 TAAAATAAATATT-A
*
30009827 -AGTAATGAAATATTA
1 TA-AAAT-AAATATTA
30009842 TAAAATAAA
1 TAAAATAAA
30009851 CAAAGCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 7 0.23
16 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
TAAAATAAATATTA
Found at i:30021757 original size:40 final size:38
Alignment explanation
Indices: 30021689--30021823 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
30021679 ACCAGAATGG
* *
30021689 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
30021729 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
30021766 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
30021807 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
30021824 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:30021821 original size:41 final size:38
Alignment explanation
Indices: 30021721--30021824 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
30021711 TTCGAAGCAA
* *
30021721 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
30021758 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
30021796 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
30021825 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:30027140 original size:40 final size:38
Alignment explanation
Indices: 30027072--30027206 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
30027062 ACCAGAATGG
* *
30027072 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
30027112 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
30027149 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
30027190 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
30027207 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:30027204 original size:41 final size:38
Alignment explanation
Indices: 30027104--30027207 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
30027094 TTCGAAGCAA
* *
30027104 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
30027141 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
30027179 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
30027208 CTCAAGGTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:30030420 original size:70 final size:70
Alignment explanation
Indices: 30030335--30030478 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
30030325 TAATACAATT
*
30030335 ATAGATAATAATAATAATTTAGTTTTACCCTCAAATATTCAAATAGAGGATGAAGAGGAAAATTT
1 ATAGATAATAATAATAATTTAGTTTTACCCTCAAATACTCAAATAGAGGATGAAGAGGAAAATTT
30030400 AGGTA
66 AGGTA
*
30030405 ATAGATAATAATAATAATTTAGTTTTACCCTCAAATACTGAAATAGAGGATGAAGAGGAAAATTT
1 ATAGATAATAATAATAATTTAGTTTTACCCTCAAATACTCAAATAGAGGATGAAGAGGAAAATTT
30030470 AGGTA
66 AGGTA
30030475 ATAG
1 ATAG
30030479 TTTCATATCT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.31
Consensus pattern (70 bp):
ATAGATAATAATAATAATTTAGTTTTACCCTCAAATACTCAAATAGAGGATGAAGAGGAAAATTT
AGGTA
Found at i:30055965 original size:18 final size:18
Alignment explanation
Indices: 30055944--30055981 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30055934 ACGAATTGAG
*
30055944 TTATTAGAGTTAATTTAA
1 TTATTAGAGTTAACTTAA
*
30055962 TTATTCGAGTTAACTTAA
1 TTATTAGAGTTAACTTAA
30055980 TT
1 TT
30055982 TTTTTTTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
TTATTAGAGTTAACTTAA
Found at i:30065842 original size:22 final size:23
Alignment explanation
Indices: 30065810--30065852 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
30065800 GTTTTAAGAG
30065810 TAAAACAGAAAGAAAAATAAAAT
1 TAAAACAGAAAGAAAAATAAAAT
* *
30065833 TAAAA-AGAAATAAAAGTAAA
1 TAAAACAGAAAGAAAAATAAA
30065853 CGATAAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (23 bp):
TAAAACAGAAAGAAAAATAAAAT
Found at i:30065931 original size:16 final size:17
Alignment explanation
Indices: 30065896--30065931 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
30065886 AAAACTAATA
30065896 TTTTTAAAATATTTATT
1 TTTTTAAAATATTTATT
*
30065913 TTTTTAAAATTTTTATT
1 TTTTTAAAATATTTATT
30065930 TT
1 TT
30065932 AAATTATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTAAAATATTTATT
Found at i:30066600 original size:11 final size:12
Alignment explanation
Indices: 30066578--30066602 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30066568 ATTATAATTT
30066578 AAGATAAAAAAA
1 AAGATAAAAAAA
30066590 AAGATAAAAAAA
1 AAGATAAAAAAA
30066602 A
1 A
30066603 TTAAACTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAGATAAAAAAA
Found at i:30072867 original size:35 final size:35
Alignment explanation
Indices: 30072828--30072902 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
30072818 AAACATGACC
30072828 GAAACATGCCACTAAAAAATTCTAATGTCAATCTT
1 GAAACATGCCACTAAAAAATTCTAATGTCAATCTT
*
30072863 GAAACATGCCACTAAAAGATTCTAATGTCAATCTT
1 GAAACATGCCACTAAAAAATTCTAATGTCAATCTT
30072898 GAAAC
1 GAAAC
30072903 TTGAAACTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (35 bp):
GAAACATGCCACTAAAAAATTCTAATGTCAATCTT
Found at i:30074265 original size:22 final size:22
Alignment explanation
Indices: 30074208--30074254 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
30074198 CGATCTGAGA
* *
30074208 AAAAATAACAG-AAATAGAATT
1 AAAAATAAAAGAAAACAGAATT
30074229 AAAAATAAAAGAAAACAGAATT
1 AAAAATAAAAGAAAACAGAATT
30074251 AAAA
1 AAAA
30074255 GAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAACAGAATT
Found at i:30076668 original size:22 final size:21
Alignment explanation
Indices: 30076631--30076682 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
30076621 AACATATAAT
*
30076631 AAATAAATA-AATAAA-TAGAA
1 AAATAAAAATAATAAATTA-AA
30076651 AAATAAAAATAATAAAATTAAA
1 AAATAAAAATAAT-AAATTAAA
*
30076673 AATTAAAAAT
1 AAATAAAAAT
30076683 TGGGTTGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 3 0.11
22 14 0.52
23 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAAAATAATAAATTAAA
Found at i:30076681 original size:14 final size:14
Alignment explanation
Indices: 30076628--30076683 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
30076618 CTGAACATAT
*
30076628 AATAAATAAATAAATA
1 AATAAA-AAATTAA-A
30076644 AATAGAAAAA-TAAA
1 AATA-AAAAATTAAA
30076658 AATAATAAAATTAAA
1 AATAA-AAAATTAAA
*
30076673 AATTAAAAATT
1 AATAAAAAATT
30076684 GGGTTGCCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 15 0.43
15 10 0.29
16 7 0.20
17 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
AATAAAAAATTAAA
Found at i:30079064 original size:17 final size:17
Alignment explanation
Indices: 30079040--30079088 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
30079030 GGCTCAACAA
*
30079040 AATTTAAATTTATTT-T
1 AATTTAAATTTATTTGG
*
30079056 AAGTTTAAATCTATTTGG
1 AA-TTTAAATTTATTTGG
30079074 AATTTAAATTTATTT
1 AATTTAAATTTATTT
30079089 AAATTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.86
18 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
AATTTAAATTTATTTGG
Found at i:30079140 original size:21 final size:21
Alignment explanation
Indices: 30079100--30079140 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30079090 AATTAATAAT
***
30079100 GTCCAAATACAAATTTAAAAA
1 GTCCAAATACAAACCCAAAAA
30079121 GTCCAAATACAAACCCAAAA
1 GTCCAAATACAAACCCAAAA
30079141 TACAAAGCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.05, T:0.17
Consensus pattern (21 bp):
GTCCAAATACAAACCCAAAAA
Found at i:30079690 original size:3 final size:3
Alignment explanation
Indices: 30079672--30079723 Score: 52
Period size: 3 Copynumber: 16.3 Consensus size: 3
30079662 ATAAATATGG
*
30079672 TAA TAAA TATA TAA TAA TAA TAA -ATA TAA TAA TAA TTAA TAT TAA TAA
1 TAA T-AA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA -TAA TAA TAA TAA
30079720 TAA T
1 TAA T
30079724 GAAAATAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 1 0.02
3 31 0.74
4 10 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:30080027 original size:51 final size:48
Alignment explanation
Indices: 30079922--30080064 Score: 134
Period size: 50 Copynumber: 3.0 Consensus size: 48
30079912 AAGAGAAAGG
* **
30079922 AGTTTTAAAAG-AAAAATCAAAACCTTTTTTAAAGAAATGAAAAGAAAAA
1 AGTTTTTAAAGAAAAAATCAAAA-C-AGTTTAAAGAAATGAAAAGAAAAA
* *
30079971 AGTTTTTTAAAGAAAAAATCAAAACAGTTTAAAAAAAATGAAAA-AAGAAT
1 AG-TTTTTAAAGAAAAAATCAAAACAGTTT-AAAGAAATGAAAAGAA-AAA
* * *
30080021 AGGTTTT--A-AAAAAATCAAAACAGTTTTAAGAAATGAAAACAAAA
1 AGTTTTTAAAGAAAAAATCAAAACAGTTTAAAGAAATGAAAAGAAAA
30080065 GGGGAAGAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
45 13 0.16
46 20 0.25
47 1 0.01
49 11 0.14
50 25 0.31
51 11 0.14
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (48 bp):
AGTTTTTAAAGAAAAAATCAAAACAGTTTAAAGAAATGAAAAGAAAAA
Found at i:30080231 original size:30 final size:29
Alignment explanation
Indices: 30080197--30080258 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
30080187 AGAGTGAGAG
30080197 AAAAGAGAA-GAAAGAAGGATTTTTTTCTGA
1 AAAAGA-AACGAAA-AAGGATTTTTTTCTGA
**
30080227 AAAAGAAACGAAAACTGATTTTTTTCTGA
1 AAAAGAAACGAAAAAGGATTTTTTTCTGA
30080256 AAA
1 AAA
30080259 TAGGGTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.27
Consensus pattern (29 bp):
AAAAGAAACGAAAAAGGATTTTTTTCTGA
Found at i:30080851 original size:30 final size:30
Alignment explanation
Indices: 30080757--30080938 Score: 115
Period size: 30 Copynumber: 6.2 Consensus size: 30
30080747 CATAAATTAT
* * *
30080757 ATTTTTAATCTCGAACTTTCGAAAAATCAC
1 ATTTTTAACCCCGAACTTTCCAAAAATCAC
* * * *
30080787 A-TTTT-ACCCTTGAA-TGTCAAAAAATTAC
1 ATTTTTAACCC-CGAACTTTCCAAAAATCAC
* *
30080815 AATTTTAACCCCGAACTTTCCAAAAATCAT
1 ATTTTTAACCCCGAACTTTCCAAAAATCAC
* *
30080845 ATTTTT-ACCCCTAAAC-TTCCAAAAATTAC
1 ATTTTTAACCCC-GAACTTTCCAAAAATCAC
* * ** * * *
30080874 ATTTTTGATCCTAAATTTTCCAAAAACCAT
1 ATTTTTAACCCCGAACTTTCCAAAAATCAC
* *
30080904 ATTTTTACCCCCGAACTTT-CAAAAATTACC
1 ATTTTTAACCCCGAACTTTCCAAAAATCA-C
30080934 ATTTT
1 ATTTT
30080939 ACCCTTAGAT
Statistics
Matches: 114, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
28 14 0.12
29 46 0.40
30 54 0.47
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
ATTTTTAACCCCGAACTTTCCAAAAATCAC
Found at i:30080870 original size:59 final size:59
Alignment explanation
Indices: 30080735--30080939 Score: 198
Period size: 59 Copynumber: 3.5 Consensus size: 59
30080725 CCTAGAAGGT
* * * * * * *
30080735 CCCTGAATTATCCATAAATTATATTTTTAATCTCGAACTTTCGAAAAATCACA-TTTTAC
1 CCCTGAACT-TCCAAAAATTACAATTTTAATCCCGAACTTTCCAAAAATCATATTTTTAC
* * *
30080794 CCTTGAA-TGTCAAAAAATTACAATTTTAACCCCGAACTTTCCAAAAATCATATTTTTAC
1 CCCTGAACT-TCCAAAAATTACAATTTTAATCCCGAACTTTCCAAAAATCATATTTTTAC
* * * ** * *
30080853 CCCTAAACTTCCAAAAATTACATTTTTGATCCTAAATTTTCCAAAAACCATATTTTTAC
1 CCCTGAACTTCCAAAAATTACAATTTTAATCCCGAACTTTCCAAAAATCATATTTTTAC
* * *
30080912 CCCCGAACTTTCAAAAATTACCATTTTA
1 CCCTGAACTTCCAAAAATTACAATTTTA
30080940 CCCTTAGATG
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
58 36 0.31
59 81 0.69
60 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (59 bp):
CCCTGAACTTCCAAAAATTACAATTTTAATCCCGAACTTTCCAAAAATCATATTTTTAC
Found at i:30080940 original size:29 final size:30
Alignment explanation
Indices: 30080768--30081060 Score: 86
Period size: 29 Copynumber: 10.0 Consensus size: 30
30080758 TTTTTAATCT
* *
30080768 CGAACTTTCGAAAAATCA-CA-TTTTACCCT
1 CGAACTTTC-AAAAATTACCATTTTTACCCC
* * * *
30080797 TGAA-TGTCAAAAAATTA-CAATTTTAACCC
1 CGAACTTTC-AAAAATTACCATTTTTACCCC
* *
30080826 CGAACTTTCCAAAAATCA-TATTTTTACCCC
1 CGAACTTT-CAAAAATTACCATTTTTACCCC
** * *
30080856 TAAACTTCCAAAAATTA-CATTTTTGA-TCC
1 CGAACTTTCAAAAATTACCATTTTT-ACCCC
** * *
30080885 TAAATTTTCCAAAA--ACCATATTTTTACCCC
1 CGAACTTTCAAAAATTACC--ATTTTTACCCC
*
30080915 CGAACTTTCAAAAATTACCA-TTTTACCCTT
1 CGAACTTTCAAAAATTACCATTTTTACCC-C
* ** *
30080945 AGATGTAT-AAAAATT-CCATTTTTA--CC
1 CGAACTTTCAAAAATTACCATTTTTACCCC
* * **
30080971 CTAATTTTTCCAAAAATTACCA--TTTACCTT
1 CGAA-CTTT-CAAAAATTACCATTTTTACCCC
* *
30081001 CGAA-TGTCTAAAAATT-CCATTTTTGA-CCT
1 CGAACTTTC-AAAAATTACCATTTTT-ACCCC
*
30081030 CGAACTTTTAAAAAATTACCA-TTTTACCCC
1 CGAAC-TTTCAAAAATTACCATTTTTACCCC
30081060 C
1 C
30081061 AAGTGTCTAA
Statistics
Matches: 193, Mismatches: 45, Indels: 51
0.67 0.16 0.18
Matches are distributed among these distances:
26 1 0.01
27 8 0.04
28 29 0.15
29 78 0.40
30 68 0.35
31 6 0.03
32 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
CGAACTTTCAAAAATTACCATTTTTACCCC
Found at i:30080985 original size:58 final size:60
Alignment explanation
Indices: 30080915--30081058 Score: 192
Period size: 57 Copynumber: 2.5 Consensus size: 60
30080905 TTTTTACCCC
30080915 CGAAC-TTTCAAAAATTACCATTTTACCCTTAG-ATGTATAAAAATTCCATTTTT-ACC-
1 CGAACTTTTCAAAAATTACCATTTTACCCTTAGAATGTATAAAAATTCCATTTTTGACCT
* * * *
30080971 CTAATTTTTCCAAAAATTACCA-TTTA-CCTTCGAATGTCTAAAAATTCCATTTTTGACCT
1 CGAACTTTT-CAAAAATTACCATTTTACCCTTAGAATGTATAAAAATTCCATTTTTGACCT
*
30081030 CGAACTTTTAAAAAATTACCATTTTACCC
1 CGAACTTTTCAAAAATTACCATTTTACCC
30081059 CCAAGTGTCT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
56 8 0.11
57 27 0.36
58 26 0.35
59 11 0.15
60 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (60 bp):
CGAACTTTTCAAAAATTACCATTTTACCCTTAGAATGTATAAAAATTCCATTTTTGACCT
Found at i:30081024 original size:57 final size:59
Alignment explanation
Indices: 30080915--30081075 Score: 190
Period size: 58 Copynumber: 2.8 Consensus size: 59
30080905 TTTTTACCCC
* *
30080915 CGAAC-TTTCAAAAATTACCATTTTACCCTTAG-ATGTATAAAAATTCCATTTTT-ACC-
1 CGAACTTTTCAAAAATTACCATTTTA-CCTTCGAATGTCTAAAAATTCCATTTTTGACCT
* *
30080971 CTAATTTTTCCAAAAATTACCA-TTTACCTTCGAATGTCTAAAAATTCCATTTTTGACCT
1 CGAACTTTT-CAAAAATTACCATTTTACCTTCGAATGTCTAAAAATTCCATTTTTGACCT
* * *
30081030 CGAACTTTTAAAAAATTACCATTTTACC-CCCAAGTGTCTAAAAATT
1 CGAACTTTTCAAAAATTACCATTTTACCTTCGAA-TGTCTAAAAATT
30081076 ATCGTTTGCC
Statistics
Matches: 89, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
56 8 0.09
57 27 0.30
58 29 0.33
59 25 0.28
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (59 bp):
CGAACTTTTCAAAAATTACCATTTTACCTTCGAATGTCTAAAAATTCCATTTTTGACCT
Found at i:30081076 original size:29 final size:29
Alignment explanation
Indices: 30080906--30081076 Score: 88
Period size: 29 Copynumber: 5.9 Consensus size: 29
30080896 AAAACCATAT
*
30080906 TTTTACCCCCGAACTTTC-AAAAATTACCA
1 TTTTACCCCC-AACTGTCTAAAAATTACCA
** *
30080935 TTTTACCCTTAGA-TGTATAAAAATT-CCA
1 TTTTACCCCCA-ACTGTCTAAAAATTACCA
* * * *
30080963 TTTTTA-CCCTAATTTTTCCAAAAATTACCA
1 -TTTTACCCCCAA-CTGTCTAAAAATTACCA
* *
30080993 -TTTACCTTCGAA-TGTCTAAAAATT-CCA
1 TTTTACC-CCCAACTGTCTAAAAATTACCA
* * *
30081020 TTTTTGACCTCGAACT-TTTAAAAAATTACCA
1 -TTTT-ACCCCCAACTGTCT-AAAAATTACCA
*
30081051 TTTTACCCCCAAGTGTCTAAAAATTA
1 TTTTACCCCCAACTGTCTAAAAATTA
30081077 TCGTTTGCCC
Statistics
Matches: 110, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
27 4 0.04
28 24 0.22
29 56 0.51
30 23 0.21
31 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTTACCCCCAACTGTCTAAAAATTACCA
Found at i:30087075 original size:11 final size:11
Alignment explanation
Indices: 30087059--30087088 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
30087049 CGTAGTGGTA
30087059 AGAGTTATGAC
1 AGAGTTATGAC
30087070 AGAGTTATGAC
1 AGAGTTATGAC
30087081 AGAGTTAT
1 AGAGTTAT
30087089 TAAAATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (11 bp):
AGAGTTATGAC
Found at i:30092938 original size:17 final size:17
Alignment explanation
Indices: 30092916--30092958 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
30092906 GGGGTAGATT
30092916 GCGATTATCGCAACGGG
1 GCGATTATCGCAACGGG
30092933 GCGATTATCGCAACGGG
1 GCGATTATCGCAACGGG
30092950 GCGATTATC
1 GCGATTATC
30092959 TTCCTGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (17 bp):
GCGATTATCGCAACGGG
Found at i:30093331 original size:209 final size:207
Alignment explanation
Indices: 30092956--30093636 Score: 850
Period size: 209 Copynumber: 3.3 Consensus size: 207
30092946 CGGGGCGATT
* * * **
30092956 ATCTTCCTGATGAGATACAGAGAAGCATA-CAAACTTGATGAAACATAGCTCAAATGTGAGCGAA
1 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAA-TCAATGAAACA-AGCTCAAA-GTGAGCGAA
** *
30093020 TCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAAGCGGTTACCTT
63 TCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAAATGATTACCTT
*
30093085 CCTAATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAA
127 CCTAATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAA
30093150 AACAAGTGATGCGGTC
192 AACAAGTGATGCGGTC
*
30093166 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAAAGTGAGCAAATC
1 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAA-GCTCAAAGTGAGCGAATC
* * * *
30093231 TTCGAACCCTAGCTTCTTGATGAGACATTGAGAAGCAGGTCGAAGGAATAAAATGATTAGCTTCC
65 TTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAAATGATTACCTTCC
* * * * * **
30093296 TGATGAGATACTGAGAAGT-ACACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAA
129 TAATGAGATACAGAGAAGTGA-ACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAA
* *
30093360 ACAAGCGATGCGGTT
193 ACAAGTGATGCGGTC
* * * * * * *
30093375 GTCTTCTTGATGAGATACTAAGAAGTAGACCAAAACAATGAAACCAAAGCTCGATGTGAGCGAAC
1 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA-C-AAGCTCAAAGTGAGCGAAT
* *
30093440 CTTCGAACTCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAAT-AGTTACCTT
64 CTTCGAAC-CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAAATGA-TTACCTT
* * * *
30093504 CCTTATGAGATTCAGAGAAGTGAACCGAATCCGTCTTCCTGATGAGGCAC--AGAAGTGGATCAA
127 CCTAATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAA
* *
30093567 AACAAATGATGCGATC
192 AACAAGTGATGCGGTC
* * *
30093583 ATCTTCTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCAAACTCAAA
1 ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAA-CAAGCTCAAA
30093637 AGACTACGAT
Statistics
Matches: 404, Mismatches: 58, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
207 6 0.01
208 67 0.17
209 172 0.43
210 150 0.37
211 9 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (207 bp):
ATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGCTCAAAGTGAGCGAATCT
TCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGGAATAAAATGATTACCTTCCTA
ATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACA
AGTGATGCGGTC
Found at i:30093950 original size:6 final size:6
Alignment explanation
Indices: 30093939--30094022 Score: 65
Period size: 6 Copynumber: 14.8 Consensus size: 6
30093929 CGGGCTAACA
* * * *
30093939 AAATTT AAATTT AAATTT ATA-TT AAGTTT AAATCT --ATTT GGAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT -AAATTT
30093985 AAATTT --ATTAT AAATTT AAATTT AAATTT --ATTT AAATT
1 AAATTT AAATT-T AAATTT AAATTT AAATTT AAATTT AAATT
30094023 AATAATGTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
4 10 0.16
5 4 0.06
6 41 0.66
7 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:30093968 original size:17 final size:15
Alignment explanation
Indices: 30093941--30094022 Score: 67
Period size: 17 Copynumber: 4.9 Consensus size: 15
30093931 GGCTAACAAA
30093941 ATTTAAATTTAAATTT
1 ATTT-AATTTAAATTT
*
30093957 ATATTAAGTTTAAATCT
1 AT-TTAA-TTTAAATTT
30093974 ATTTGGAATTTAAATTT
1 ATTT--AATTTAAATTT
30093991 ATTATAAATTTAAATTT
1 ATT-T-AATTTAAATTT
30094008 AAATTT-ATTTAAATT
1 --ATTTAATTTAAATT
30094023 AATAATGTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
16 15 0.27
17 34 0.61
18 4 0.07
19 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (15 bp):
ATTTAATTTAAATTT
Found at i:30094006 original size:23 final size:22
Alignment explanation
Indices: 30093980--30094022 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
30093970 ATCTATTTGG
30093980 AATTTAAATTTATTATAAATTTA
1 AATTTAAATTTATT-TAAATTTA
30094003 AATTTAAATTTATTTAAATT
1 AATTTAAATTTATTTAAATT
30094023 AATAATGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTAAATTTATTTAAATTTA
Found at i:30094674 original size:18 final size:18
Alignment explanation
Indices: 30094651--30094700 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
30094641 GGTAATAAAT
*
30094651 ATATATTATTAATAATAA
1 ATATATTAATAATAATAA
*
30094669 ATATATTAATAATAAT-T
1 ATATATTAATAATAATAA
30094686 A-ATATTAATAATAAT
1 ATATATTAATAATAAT
30094701 GAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.47
17 1 0.03
18 15 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTAATAATAATAA
Found at i:30094707 original size:18 final size:17
Alignment explanation
Indices: 30094653--30094707 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
30094643 TAATAAATAT
*
30094653 ATATTATTAATAATAAA
1 ATATTAATAATAATAAA
*
30094670 TATATTAATAATAAT-TA
1 -ATATTAATAATAATAAA
30094687 ATATTAATAATAATGAAA
1 ATATTAATAATAAT-AAA
30094705 ATA
1 ATA
30094708 AAAAAAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 14 0.44
17 1 0.03
18 17 0.53
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATTAATAATAATAAA
Found at i:30094951 original size:51 final size:48
Alignment explanation
Indices: 30094896--30095034 Score: 133
Period size: 48 Copynumber: 2.9 Consensus size: 48
30094886 GAGAAAGGAG
* * * *
30094896 TTTTAAAGGAAAAATCAAAACCTTTTTTAAAGAAATGAAAAGAAAAAAGTT
1 TTTTAAAGAAAAAATCAAAA-C--ATTTAAAAAAATGAAAAGAAAAAAGGT
*
30094947 TTTTAAAGAAAAAATCAAAACATTTAAAAAAATGAAAAGAGAAAAGG-
1 TTTTAAAGAAAAAATCAAAACATTTAAAAAAATGAAAAGAAAAAAGGT
* * * *
30094994 TTTT--A-AAAAAATCAAAATAGTTTTAAGAAATGAAAATAAAA
1 TTTTAAAGAAAAAATCAAAACA-TTTAAAAAAATGAAAAGAAAA
30095035 GGGGAAGAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
44 13 0.17
45 18 0.23
47 4 0.05
48 22 0.29
50 1 0.01
51 19 0.25
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (48 bp):
TTTTAAAGAAAAAATCAAAACATTTAAAAAAATGAAAAGAAAAAAGGT
Found at i:30095721 original size:30 final size:30
Alignment explanation
Indices: 30095679--30095879 Score: 198
Period size: 30 Copynumber: 6.8 Consensus size: 30
30095669 GAAGGTCCCT
*
30095679 GAACTATCCAAAAATTACATTTTTGACCTC
1 GAACTTTCCAAAAATTACATTTTTGACCTC
* *
30095709 AAACTTTCCAAAAATCACATTTTT-ACCCTC
1 GAACTTTCCAAAAATTACATTTTTGA-CCTC
30095739 GAAC-TTCCAAAAATTACATTTTTGACCTC
1 GAACTTTCCAAAAATTACATTTTTGACCTC
* **
30095768 GAACTTTCCAAAAATCACATTTTCACACCT-
1 GAACTTTCCAAAAATTACATTTT-TGACCTC
* ** *
30095798 GAAC-CTCCAAAAATTACGGTTTTGACCCC
1 GAACTTTCCAAAAATTACATTTTTGACCTC
* * * *
30095827 AAAATTTCAAAAAATCACATTTTT-ACCCTC
1 GAACTTTCCAAAAATTACATTTTTGA-CCTC
30095857 GAAC-TTCCAAAAATTACCATTTT
1 GAACTTTCCAAAAATTA-CATTTT
30095880 ACCCCTAAAT
Statistics
Matches: 136, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
28 3 0.02
29 54 0.40
30 75 0.55
31 4 0.03
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (30 bp):
GAACTTTCCAAAAATTACATTTTTGACCTC
Found at i:30095746 original size:29 final size:29
Alignment explanation
Indices: 30095675--30095883 Score: 196
Period size: 29 Copynumber: 7.1 Consensus size: 29
30095665 CTCAGAAGGT
30095675 CCCT-GAACTATCCAAAAATTACATTTTTGA
1 CCCTCGAACT-TCCAAAAATTACATTTTT-A
* *
30095705 -CCTCAAACTTTCCAAAAATCACATTTTTA
1 CCCTCGAAC-TTCCAAAAATTACATTTTTA
30095734 CCCTCGAACTTCCAAAAATTACATTTTTGA
1 CCCTCGAACTTCCAAAAATTACATTTTT-A
* *
30095764 -CCTCGAACTTTCCAAAAATCACATTTTCA
1 CCCTCGAAC-TTCCAAAAATTACATTTTTA
* * *
30095793 CACCT-GAACCTCCAAAAATTACGGTTTTGA
1 C-CCTCGAACTTCCAAAAATTAC-ATTTTTA
* * * *
30095823 CCC-CAAAATTTCAAAAAATCACATTTTTA
1 CCCTC-GAACTTCCAAAAATTACATTTTTA
30095852 CCCTCGAACTTCCAAAAATTACCA-TTTTA
1 CCCTCGAACTTCCAAAAATTA-CATTTTTA
30095881 CCC
1 CCC
30095884 CTAAATGTAT
Statistics
Matches: 146, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
29 72 0.49
30 70 0.48
31 4 0.03
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (29 bp):
CCCTCGAACTTCCAAAAATTACATTTTTA
Found at i:30095777 original size:59 final size:58
Alignment explanation
Indices: 30095675--30095879 Score: 293
Period size: 59 Copynumber: 3.4 Consensus size: 58
30095665 CTCAGAAGGT
30095675 CCCTGAACTATCCAAAAATTACATTTTTGACCTCAAACTTTCCAAAAATCACATTTTTA
1 CCCTGAACT-TCCAAAAATTACATTTTTGACCTCAAACTTTCCAAAAATCACATTTTTA
* *
30095734 CCCTCGAACTTCCAAAAATTACATTTTTGACCTCGAACTTTCCAAAAATCACATTTTCA
1 CCCT-GAACTTCCAAAAATTACATTTTTGACCTCAAACTTTCCAAAAATCACATTTTTA
* ** * * *
30095793 CACCTGAACCTCCAAAAATTACGGTTTTGACCCCAAAATTTCAAAAAATCACATTTTTA
1 C-CCTGAACTTCCAAAAATTACATTTTTGACCTCAAACTTTCCAAAAATCACATTTTTA
30095852 CCCTCGAACTTCCAAAAATTACCATTTT
1 CCCT-GAACTTCCAAAAATTA-CATTTT
30095880 ACCCCTAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
58 3 0.02
59 114 0.88
60 12 0.09
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (58 bp):
CCCTGAACTTCCAAAAATTACATTTTTGACCTCAAACTTTCCAAAAATCACATTTTTA
Found at i:30095897 original size:29 final size:29
Alignment explanation
Indices: 30095865--30096032 Score: 117
Period size: 30 Copynumber: 5.7 Consensus size: 29
30095855 TCGAACTTCC
*
30095865 AAAAATTACCATTTTACCCCTAAATGTAT
1 AAAAATTACCATTTTACCCCTAAATGTCT
* * *
30095894 AAAAATT-CCATTTTTCACCCTAAAATTTCC
1 AAAAATTACCATTTTAC-CCCT-AAATGTCT
* *
30095924 AAAAATAACCATTTTACTCCTAAATGTCT
1 AAAAATTACCATTTTACCCCTAAATGTCT
* * * *
30095953 AAAAATT-CAATTTTTGACCCCGAACCTTTC-
1 AAAAATTACCA-TTTT-ACCCCTAA-ATGTCT
* ** * *
30095983 GAAAATTACCATTTTTGCCATCAAGTGTCT
1 AAAAATTACCATTTTACCCCT-AAATGTCT
*
30096013 AAAAATTACCGTTTTACCCC
1 AAAAATTACCATTTTACCCC
30096033 CGAGTATCCA
Statistics
Matches: 102, Mismatches: 28, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
28 10 0.10
29 32 0.31
30 47 0.46
31 13 0.13
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCCTAAATGTCT
Found at i:30095898 original size:59 final size:59
Alignment explanation
Indices: 30095675--30095997 Score: 281
Period size: 59 Copynumber: 5.5 Consensus size: 59
30095665 CTCAGAAGGT
* *
30095675 CCCT-GAACTATCCAAAAATTA-CATTTTTGACCTC-AAACTTTCCAAAAATCACATTTTTA
1 CCCTCGAACT-TCCAAAAATTACCA-TTTTGACCCCTAAA-TTTCAAAAAATCACATTTTTA
* * * * *
30095734 CCCTCGAACTTCCAAAAATTA-CATTTTTGACCTCGAACTTTCCAAAAATCACATTTTCA
1 CCCTCGAACTTCCAAAAATTACCA-TTTTGACCCCTAAATTTCAAAAAATCACATTTTTA
* ** *
30095793 CACCT-GAACCTCCAAAAATTACGGTTTTGACCCCAAAATTTCAAAAAATCACATTTTTA
1 C-CCTCGAACTTCCAAAAATTACCATTTTGACCCCTAAATTTCAAAAAATCACATTTTTA
*
30095852 CCCTCGAACTTCCAAAAATTACCATTTT-ACCCCTAAATGTAT-AAAAATTC-CATTTTTCA
1 CCCTCGAACTTCCAAAAATTACCATTTTGACCCCTAAAT-T-TCAAAAAATCACATTTTT-A
** * * * * *
30095911 CCCTAAAATTTCCAAAAATAACCATTTT-ACTCCTAAATGTCTAAAAATTCA-ATTTTTGA
1 CCCTCGAACTTCCAAAAATTACCATTTTGACCCCTAAATTTC-AAAAAATCACATTTTT-A
* *
30095970 CCC-CGAACCTTTCGAAAATTACCATTTT
1 CCCTCGAA-CTTCCAAAAATTACCATTTT
30095998 TGCCATCAAG
Statistics
Matches: 224, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.00
58 21 0.09
59 191 0.85
60 11 0.05
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (59 bp):
CCCTCGAACTTCCAAAAATTACCATTTTGACCCCTAAATTTCAAAAAATCACATTTTTA
Found at i:30095946 original size:30 final size:29
Alignment explanation
Indices: 30095685--30095947 Score: 107
Period size: 30 Copynumber: 8.9 Consensus size: 29
30095675 CCCTGAACTA
*
30095685 TCCAAAAATTA-CATTTTTGA-CCTCAAACTT
1 TCCAAAAA-TACCATTTTT-ACCCT-AAAATT
** *
30095715 TCCAAAAAT-CACATTTTTACCCTCGAACT
1 TCCAAAAATAC-CATTTTTACCCTAAAATT
* *
30095744 TCCAAAAATTA-CATTTTTGA-CCTCGAACTT
1 TCCAAAAA-TACCATTTTT-ACCCT-AAAATT
* * **
30095774 TCCAAAAAT-CACATTTTCACACCT-GAACC
1 TCCAAAAATAC-CATTTTTAC-CCTAAAATT
** * *
30095803 TCCAAAAATTACGGTTTTGACCCCAAAATT
1 TCCAAAAA-TACCATTTTTACCCTAAAATT
* ** *
30095833 TCAAAAAAT-CACATTTTTACCCTCGAACT
1 TCCAAAAATAC-CATTTTTACCCTAAAATT
*
30095862 TCCAAAAATTACCA-TTTTACCCCT-AAATG
1 TCCAAAAA-TACCATTTTTA-CCCTAAAATT
** *
30095891 TATAAAAATTCCATTTTTCACCCTAAAATT
1 TCCAAAAATACCATTTTT-ACCCTAAAATT
30095921 TCCAAAAATAACCA-TTTTACTCCTAAA
1 TCCAAAAAT-ACCATTTTTAC-CCTAAA
30095948 TGTCTAAAAA
Statistics
Matches: 171, Mismatches: 39, Indels: 46
0.67 0.15 0.18
Matches are distributed among these distances:
28 5 0.03
29 77 0.45
30 81 0.47
31 8 0.05
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (29 bp):
TCCAAAAATACCATTTTTACCCTAAAATT
Found at i:30097516 original size:15 final size:16
Alignment explanation
Indices: 30097489--30097518 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30097479 TGAGGAAAAA
30097489 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
30097505 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
30097519 AATAGAGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:30101343 original size:160 final size:161
Alignment explanation
Indices: 30100732--30101328 Score: 923
Period size: 161 Copynumber: 3.7 Consensus size: 161
30100722 AATGCCATCC
* * * * * * * * * * *
30100732 TTTTTTGGCTTCTAGTTCTCATACTCGTACCCGACTGAGA-A-CAATAATCAGAACCCAAATTAA
1 TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTAG
* * * *
30100795 ATT-TAAATAATTTGGAATTGACAATGAGAAAGTGTTTACAATTTACCTGTGATCTAGTTGTGTT
66 ATTAT-TATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAGTTGTGTT
30100859 AGCCTGAATGCATGGTGGTGTTCTGTCGTTCT
130 AGCCTGAATGCATGGTGGTGTTCTGTCGTTCT
* * *
30100891 TTTGTTTGGATTGTACTTCTCGTAGTCGTACCAGACTAAGACATAAAAAATCAAAACCAAAATTA
1 TTT-TTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTA
*
30100956 GATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAATTGTGTT
65 GATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAGTTGTGTT
*
30101021 AGCCTGAATGCATGGTGGTGTTCTGTCATTCT
130 AGCCTGAATGCATGGTGGTGTTCTGTCGTTCT
30101053 TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTAG
1 TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTAG
30101118 ATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAGTTGTGTTA
66 ATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAGTTGTGTTA
* *
30101183 GCCTGCATGCATGGTGGTGTTTTGTCGTTC-
131 GCCTGAATGCATGGTGGTGTTCTGTCGTTCT
*
30101213 TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAACTCAAAACCGAAATTAG
1 TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTAG
* *
30101278 ATTATTATAATTTAGAGTTGACAATGAGAAAGTGTTTACCATATACCTGTG
66 ATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTG
30101329 TTTTCGTTGT
Statistics
Matches: 406, Mismatches: 28, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
159 3 0.01
160 143 0.35
161 151 0.37
162 108 0.27
163 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (161 bp):
TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTAG
ATTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAGTTGTGTTA
GCCTGAATGCATGGTGGTGTTCTGTCGTTCT
Found at i:30101343 original size:321 final size:321
Alignment explanation
Indices: 30100732--30101328 Score: 939
Period size: 321 Copynumber: 1.9 Consensus size: 321
30100722 AATGCCATCC
* * * * * *
30100732 TTTTTTGGCTTCTAGTTCTCATACTCGTACCCGACTGAGAACAATAATCAGAACCCAAATTAAAT
1 TTTTTTGGCTTCTACTTCTCATACTCGTACCAGACTAAGAAAAAAAATCAAAACCCAAATTAAAT
* *
30100797 TTAAATAATTTGGAATTGACAATGAGAAAGTGTTTACAATTTACCTGTGATCTAGTTGTGTTAGC
66 TTAAATAATTTGGAATTGACAATGAGAAAGTGTTTACAATATACCTGTGATCCAGTTGTGTTAGC
*
30100862 CTGAATGCATGGTGGTGTTCTGTCGTTCTTTTGTTTGGATTGTACTTCTCGTAGTCGTACCAGAC
131 CTGAATGCATGGTGGTGTTCTGTCGTTCTTTTGTTTGGATTGTACTTCTCGTACTCGTACCAGAC
*
30100927 TAAGACATAAAAAATCAAAACCAAAATTAGATTATTATAATTTGGAATTGACAATGAGAAAGTGT
196 TAAGACATAAAAAATCAAAACCAAAATTAGATTATTATAATTTAGAATTGACAATGAGAAAGTGT
30100992 TTACCATATACCTGTGATCCAATTGTGTTAGCCTGAATGCATGGTGGTGTTCTGTCATTCT
261 TTACCATATACCTGTGATCCAATTGTGTTAGCCTGAATGCATGGTGGTGTTCTGTCATTCT
* * * * *
30101053 TTTTTTGGGTTGTACTTCTCGTACTCGTACCAGACTAAGACATAAAAAATCAAAACCGAAATTAG
1 TTTTTTGGCTTCTACTTCTCATACTCGTACCAGACTAAGA-A-AAAAAATCAAAACCCAAATTAA
* *
30101118 A-TTATTATAATTTGGAATTGACAATGAGAAAGTGTTTACCATATACCTGTGATCCAGTTGTGTT
64 ATTTA-AATAATTTGGAATTGACAATGAGAAAGTGTTTACAATATACCTGTGATCCAGTTGTGTT
* * *
30101182 AGCCTGCATGCATGGTGGTGTTTTGTCGTTC-TTT-TTTGGGTTGTACTTCTCGTACTCGTACCA
128 AGCCTGAATGCATGGTGGTGTTCTGTCGTTCTTTTGTTTGGATTGTACTTCTCGTACTCGTACCA
* * *
30101245 GACTAAGACATAAAAACTCAAAACCGAAATTAGATTATTATAATTTAGAGTTGACAATGAGAAAG
193 GACTAAGACATAAAAAATCAAAACCAAAATTAGATTATTATAATTTAGAATTGACAATGAGAAAG
30101310 TGTTTACCATATACCTGTG
258 TGTTTACCATATACCTGTG
30101329 TTTTCGTTGT
Statistics
Matches: 250, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
321 141 0.56
322 7 0.03
323 102 0.41
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (321 bp):
TTTTTTGGCTTCTACTTCTCATACTCGTACCAGACTAAGAAAAAAAATCAAAACCCAAATTAAAT
TTAAATAATTTGGAATTGACAATGAGAAAGTGTTTACAATATACCTGTGATCCAGTTGTGTTAGC
CTGAATGCATGGTGGTGTTCTGTCGTTCTTTTGTTTGGATTGTACTTCTCGTACTCGTACCAGAC
TAAGACATAAAAAATCAAAACCAAAATTAGATTATTATAATTTAGAATTGACAATGAGAAAGTGT
TTACCATATACCTGTGATCCAATTGTGTTAGCCTGAATGCATGGTGGTGTTCTGTCATTCT
Found at i:30102304 original size:32 final size:33
Alignment explanation
Indices: 30102268--30102347 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
30102258 GACCCTGCAA
*
30102268 TTTAAATTAAAAACCATAAGTA-TGCTGCCAAT
1 TTTAAATTAAAAAACATAAGTACTGCTGCCAAT
*
30102300 TTTAAATTAAAAAACATAAGTACGTCTGCTGTCAAT
1 TTTAAATTAAAAAACATAAGTA---CTGCTGCCAAT
30102336 TTTAAATTAAAA
1 TTTAAATTAAAA
30102348 CAGAACACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 21 0.50
36 21 0.50
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (33 bp):
TTTAAATTAAAAAACATAAGTACTGCTGCCAAT
Found at i:30104362 original size:15 final size:15
Alignment explanation
Indices: 30104342--30104380 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
30104332 CATCCTCCTG
*
30104342 CACCCTCACCTTCAA
1 CACCCTCACCCTCAA
*
30104357 CACCCTTACCCTCAA
1 CACCCTCACCCTCAA
*
30104372 CACCTTCAC
1 CACCCTCAC
30104381 TAACAGCACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.54, G:0.00, T:0.21
Consensus pattern (15 bp):
CACCCTCACCCTCAA
Found at i:30106229 original size:44 final size:46
Alignment explanation
Indices: 30106174--30106265 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 46
30106164 AAACCTAAGT
**
30106174 CCCGAAAATCCCCAAAATT-TTAAAGTTAAACCAAAATTTC-CAAAC
1 CCCGAAAATCCCCAAAATTCTTAAACCTAAACC-AAATTTCTCAAAC
*
30106219 CCCG-AAATCCCCAAATTTCTTAAACCTAAACCAAATTTCTCAAAC
1 CCCGAAAATCCCCAAAATTCTTAAACCTAAACCAAATTTCTCAAAC
30106264 CC
1 CC
30106266 AACAACCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 20 0.48
45 22 0.52
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (46 bp):
CCCGAAAATCCCCAAAATTCTTAAACCTAAACCAAATTTCTCAAAC
Found at i:30114389 original size:3 final size:3
Alignment explanation
Indices: 30114381--30114415 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
30114371 AGTTAGTTAG
30114381 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30114416 TAGCATTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30115114 original size:16 final size:16
Alignment explanation
Indices: 30115082--30115113 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
30115072 AAAAAAAATG
30115082 AGAAAAAGAAAGAAAA
1 AGAAAAAGAAAGAAAA
30115098 AGAAAAAG-AAGAAAA
1 AGAAAAAGAAAGAAAA
30115113 A
1 A
30115114 AATTTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAGAAAA
Found at i:30123584 original size:21 final size:21
Alignment explanation
Indices: 30123560--30123611 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30123550 TGAGACAATA
30123560 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* * *
30123581 CTACCAAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
30123602 CTACCGATAC
1 CTACCGATAC
30123612 TAAAAACTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:30124692 original size:193 final size:195
Alignment explanation
Indices: 30124418--30124780 Score: 464
Period size: 201 Copynumber: 1.9 Consensus size: 195
30124408 TACTATAAAT
* * *
30124418 TGTTCCCCAACAATGCTGCTCACACGAGCTGTCAAGAGTATGTAATAAGCATAGTCCTAGCCATC
1 TGTTCCCCAACAATGCTGCTCACACGAGCTGTCAAGAATATGCAATAAGCATAATCCTAGCCATC
** * * *
30124483 GTAGGGTTTGTAATCCATTTAGGATCCATA-TC-TC-T-TTCTCGAGTCACGATGCTGCTCACAC
66 GTAGGGCCTGTAATCCATTTAGGATCCATATTCTTCTTATTCCCGACTCACAATGCTGCTCACAC
*
30124544 GATCTGTCAAGGACTCGCAACATATGCGGTACCTCAGCCATTGATACGGTATCTGTGCATATAAC
131 GAGCTGTCAAGGACTCGCAACATATGCGGTACCTCAGCCATTGATACGGTATCTGTGCATATAAC
* * * * * * *
30124609 TGTTCCCTAACGATGCTGCTCACACGAGTTGTCGAGAATATGCACTTATGCATAAATCTTAGCCA
1 TGTTCCCCAACAATGCTGCTCACACGAGCTGTCAAGAATATGCA-ATAAGCAT-AATCCTAGCCA
*
30124674 TCGTAGGGCCTGTAATCCATTTAGGATCCATATTTCTTTTCTTACTTCCCGACTCACAATGTTGC
64 TCGTAGGGCCTGTAATCCATTTAGGATCCATA-TTC--TTCTTA-TTCCCGACTCACAATGCTGC
* * *
30124739 TCGCACGAGCTGTCGAGGACTCGCAACATATGTGGTACCTCA
125 TCACACGAGCTGTCAAGGACTCGCAACATATGCGGTACCTCA
30124781 AGCATCGCGT
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
191 38 0.27
192 6 0.04
193 39 0.27
195 2 0.01
198 2 0.01
199 1 0.01
201 54 0.38
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (195 bp):
TGTTCCCCAACAATGCTGCTCACACGAGCTGTCAAGAATATGCAATAAGCATAATCCTAGCCATC
GTAGGGCCTGTAATCCATTTAGGATCCATATTCTTCTTATTCCCGACTCACAATGCTGCTCACAC
GAGCTGTCAAGGACTCGCAACATATGCGGTACCTCAGCCATTGATACGGTATCTGTGCATATAAC
Found at i:30126868 original size:7 final size:7
Alignment explanation
Indices: 30126853--30126882 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
30126843 ATGTGTTTTA
30126853 TTTAA-T
1 TTTAATT
30126859 TTTAATT
1 TTTAATT
30126866 TTTAATT
1 TTTAATT
30126873 TTTAATT
1 TTTAATT
30126880 TTT
1 TTT
30126883 TTAATCCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTAATT
Found at i:30127041 original size:27 final size:26
Alignment explanation
Indices: 30127018--30127068 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30127008 TTATTTATAT
30127018 AATTT-TATTATATATTATATTTTAAA
1 AATTTGTATTATATATTAT-TTTTAAA
* *
30127044 AATTTGTATTTTCTATTATTTTTAA
1 AATTTGTATTATATATTATTTTTAA
30127069 TTGGGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTTGTATTATATATTATTTTTAAA
Found at i:30129030 original size:20 final size:19
Alignment explanation
Indices: 30128983--30129034 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
30128973 ACAATTTCTA
30128983 ATAATTTTTATAATTTTTTC
1 ATAATTTTTA-AATTTTTTC
* *
30129003 ATAGTTTTTAAAGTTTTTTT
1 ATAATTTTTAAA-TTTTTTC
*
30129023 TTAATTTTTAAA
1 ATAATTTTTAAA
30129035 CAATTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
ATAATTTTTAAATTTTTTC
Found at i:30129872 original size:23 final size:23
Alignment explanation
Indices: 30129822--30129872 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
30129812 TTAAAAAATG
* * **
30129822 AAATTAAATTATAATTTTTACGA
1 AAATAAAAATATAATTTTTAAAA
*
30129845 TAATAAAAATATAATTTTTAAAA
1 AAATAAAAATATAATTTTTAAAA
30129868 AAATA
1 AAATA
30129873 TATTAAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATAAAAATATAATTTTTAAAA
Found at i:30132918 original size:43 final size:43
Alignment explanation
Indices: 30132852--30132933 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
30132842 ACCATTGTGT
* *
30132852 CCAACCCCCACCACCCTCACCTTCCCTCTCACTCCTCACTGTC
1 CCAACACCCACCACACTCACCTTCCCTCTCACTCCTCACTGTC
* *
30132895 CCAACACCCACCACAACTC-CCTTCTCTGTCACTCCTCAC
1 CCAACACCCACCAC-ACTCACCTTCCCTCTCACTCCTCAC
30132934 CATCGATCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 31 0.91
44 3 0.09
ACGTcount: A:0.20, C:0.57, G:0.02, T:0.21
Consensus pattern (43 bp):
CCAACACCCACCACACTCACCTTCCCTCTCACTCCTCACTGTC
Found at i:30137787 original size:17 final size:18
Alignment explanation
Indices: 30137767--30137805 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30137757 ATAAATAAAT
* *
30137767 AAAAAGAAGAGAAAGAAA
1 AAAAAGAAGAAAAACAAA
30137785 AAATAAGAAGAAAAACAAA
1 AAA-AAGAAGAAAAACAAA
30137804 AA
1 AA
30137806 TAGAAAGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAAAGAAGAAAAACAAA
Found at i:30139117 original size:100 final size:100
Alignment explanation
Indices: 30138940--30139196 Score: 291
Period size: 100 Copynumber: 2.6 Consensus size: 100
30138930 ACACGATGGG
* * ** * * * * *
30138940 AAAGATCTAAAATCGCAACGGCAGATCTAGTACCGTAAAGATACAAAAGGAAAACGTGACGACCG
1 AAAGATCTAAGATCACAACAACGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTGACGACCG
**
30139005 TAACGACAAACCTTATACCTCAAAGACAGGACGGG
66 TAACGACAAACCTTATACCTCAAAGACAGGACGAA
**** *
30139040 AAAGATCTAAGA-CTACAATGGTGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTGACGATC
1 AAAGATCTAAGATC-ACAACAACGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTGACGACC
* * * *
30139104 GTAACGGCGAACCTTATACCTTAAAGACATGACGAA
65 GTAACGACAAACCTTATACCTCAAAGACAGGACGAA
* * *
30139140 AAAGATCTAAGATCGCAACAACGGATCCAGTACCACAAAGATGCAAAAGGGAAAGGT
1 AAAGATCTAAGATCACAACAACGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGT
30139197 CTAAGACGCA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 1 0.01
100 130 0.98
101 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (100 bp):
AAAGATCTAAGATCACAACAACGGATCCAGTACCGCAAAGATACAAAAGGGAAAGGTGACGACCG
TAACGACAAACCTTATACCTCAAAGACAGGACGAA
Found at i:30139180 original size:50 final size:49
Alignment explanation
Indices: 30139126--30139299 Score: 156
Period size: 49 Copynumber: 3.5 Consensus size: 49
30139116 CTTATACCTT
* *
30139126 AAAGACATGACGAAAAAGATCTAAGATCGCAACAACGGATCCAGTACCAC
1 AAAGACATGAAGAGAAAGATCTAAGA-CGCAACAACGGATCCAGTACCAC
* * * *
30139176 AAAGATGCA-AAAGGGAAAGGTCTAAGACGCAACAACGGATCTAGTACCAC
1 AAAGA--CATGAAGAGAAAGATCTAAGACGCAACAACGGATCCAGTACCAC
* * * * *
30139226 CAAGACATGAAGAGAAAGATCTAAG-CTGCGACGACGGACCCAGTACTAC
1 AAAGACATGAAGAGAAAGATCTAAGAC-GCAACAACGGATCCAGTACCAC
* * *
30139275 GAAGATA-GTAAGAGAAAGATTTAAG
1 AAAGACATG-AAGAGAAAGATCTAAG
30139300 CCGCGACGGT
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
48 4 0.04
49 51 0.50
50 31 0.31
51 13 0.13
52 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (49 bp):
AAAGACATGAAGAGAAAGATCTAAGACGCAACAACGGATCCAGTACCAC
Found at i:30139318 original size:49 final size:49
Alignment explanation
Indices: 30139218--30139329 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
30139208 CAACGGATCT
* * * *
30139218 AGTACCACCAAGACA-TGAAGAGAAAGATCTAAGCTGCGACGACGGACCC
1 AGTACCACGAAGATAGT-AAGAGAAAGATCTAAGCCGCGACGACAGACCC
* * ** *
30139267 AGTACTACGAAGATAGTAAGAGAAAGATTTAAGCCGCGACGGTAGATCC
1 AGTACCACGAAGATAGTAAGAGAAAGATCTAAGCCGCGACGACAGACCC
30139316 AGTACCACGAAGAT
1 AGTACCACGAAGAT
30139330 TTGAAAGGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 51 0.98
50 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (49 bp):
AGTACCACGAAGATAGTAAGAGAAAGATCTAAGCCGCGACGACAGACCC
Found at i:30143124 original size:59 final size:58
Alignment explanation
Indices: 30143016--30143172 Score: 215
Period size: 59 Copynumber: 2.7 Consensus size: 58
30143006 TTTGGATATC
* * * * *
30143016 CGGGGGTGAAATGGTAATTTGGGTGTAATCGGGGTTAAAAATGAAATTTTAGAAGGTT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGAAATTTTAGAAAGTT
*
30143074 CGGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATTGGGGTTAAAAATGAAATTTTAGAAAGTT
** * *
30143133 TAGGGGTAAAATGGTAATTTTGGTAAAATTAGGGTTAAAA
1 CGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAA
30143173 GGTAATTTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 37 0.42
59 51 0.58
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.32
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGAAATTTTAGAAAGTT
Found at i:30143139 original size:30 final size:28
Alignment explanation
Indices: 30143046--30143180 Score: 91
Period size: 29 Copynumber: 4.7 Consensus size: 28
30143036 GGGTGTAATC
* *
30143046 GGGGTTAAAAAT-GAAATTTTAGAAGGTT
1 GGGGTT-AAAATGGTAATTTTAGAAAGTT
* *
30143074 CGGGGGTAAAATGGTAATTTTTGGTGAAA-TT
1 -GGGGTTAAAATGGTAA-TTTT--AGAAAGTT
30143105 GGGGTTAAAAATGG-AATTTTAGAAAGTTT
1 GGGGTT-AAAATGGTAATTTTAGAAAG-TT
* *
30143134 AGGGG-TAAAATGGTAATTTTGGTAAAATT
1 -GGGGTTAAAATGGTAATTTTAG-AAAGTT
*
30143163 AGGGTTAAAA-GGTAATTT
1 GGGGTTAAAATGGTAATTT
30143181 CCTAAAATTT
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
27 4 0.05
28 23 0.27
29 29 0.34
30 18 0.21
31 9 0.10
32 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.29, T:0.34
Consensus pattern (28 bp):
GGGGTTAAAATGGTAATTTTAGAAAGTT
Found at i:30143164 original size:29 final size:29
Alignment explanation
Indices: 30143076--30143180 Score: 110
Period size: 29 Copynumber: 3.6 Consensus size: 29
30143066 AGAAGGTTCG
*
30143076 GGGGTAAAATGGTAATTTTTGGTGAAATT-
1 GGGGTAAAATGGTAA-TTTTGGTAAAATTA
* *
30143105 GGGGTTAAAAATGG-AATTTTAG-AAAGTTTA
1 GGGG-T-AAAATGGTAATTTTGGTAAA-ATTA
30143135 GGGGTAAAATGGTAATTTTGGTAAAATTA
1 GGGGTAAAATGGTAATTTTGGTAAAATTA
*
30143164 GGGTTAAAA-GGTAATTT
1 GGGGTAAAATGGTAATTT
30143181 CCTAAAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
28 17 0.27
29 30 0.47
30 10 0.16
31 7 0.11
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.35
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTGGTAAAATTA
Found at i:30143476 original size:162 final size:162
Alignment explanation
Indices: 30143302--30143614 Score: 536
Period size: 162 Copynumber: 1.9 Consensus size: 162
30143292 GATTAAATTG
* *
30143302 TAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
1 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
* * *
30143367 AAATAAATTAAAAATGTCGGGGACTAAATGAATAAATAAGCCAAAAAGTAACACGTGGCAGCCCC
66 AAACAAATTAAAAATGTCAGGGACTAAATGAATAAATAAGCCAAAAAATAACACGTGGCAGCCCC
30143432 TGATGCAGTCAAACAGTCAAAAGACTGATTTA
131 TGATGCAGTCAAACAGTCAAAAGACTGATTTA
30143464 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
1 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
* * * *
30143529 AAACAAATTAAAAATGTCAGGGACTACATGCATAAATAAGCCAAAAAATGACACGTGGCAGCCTC
66 AAACAAATTAAAAATGTCAGGGACTAAATGAATAAATAAGCCAAAAAATAACACGTGGCAGCCCC
*
30143594 TGGTGCAGTCAAACAGTCAAA
131 TGATGCAGTCAAACAGTCAAA
30143615 GGATTAAATT
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 141 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (162 bp):
TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
AAACAAATTAAAAATGTCAGGGACTAAATGAATAAATAAGCCAAAAAATAACACGTGGCAGCCCC
TGATGCAGTCAAACAGTCAAAAGACTGATTTA
Found at i:30145198 original size:6 final size:6
Alignment explanation
Indices: 30145173--30145268 Score: 87
Period size: 6 Copynumber: 16.8 Consensus size: 6
30145163 CTTTGTTTAT
* * * *
30145173 TTTAAA CTTACAA ATTAAA TTTAAA -TTAAA TTCAAA CTTAAA -TTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
30145220 TTTAAA --TAAA TTTAAA TTTAAA -TTAAA TTAAAA TTTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
30145264 TTTAA
1 TTTAA
30145269 TTTCAAAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
4 4 0.05
5 19 0.26
6 45 0.62
7 5 0.07
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
TTTAAA
Done.