Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold584
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: 85357
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Found at i:11061 original size:44 final size:44
Alignment explanation
Indices: 11013--11248 Score: 132
Period size: 44 Copynumber: 5.4 Consensus size: 44
11003 CATTTCAGTC
* * *
11013 TGACGTATGGTTACCACCCTGGTCAGAT-TCTTT-TTATTCTGATT
1 TGACGTATGGTTACCACCCTGGTCAAATCTCTTTCCT-TTATG-TT
* *
11057 TGACGTATGGCTACCACCTTGGTCAAATCTCTTTCCTTTATGTT
1 TGACGTATGGTTACCACCCTGGTCAAATCTCTTTCCTTTATGTT
* * * * *
11101 TGACATATGGTTATCACCCTAGTCAAA-CT-TTTCTCATTTCA-ATC
1 TGACGTATGGTTACCACCCTGGTCAAATCTCTTTC-C-TTT-ATGTT
* * * * * *
11145 T-AGGATATGGTTACCACCCTAGTCAGATTTGC-CTCATTT-TGATT
1 TGACG-TATGGTTACCACCCTGGTCAAATCT-CTTTCCTTTATG-TT
* * * * *
11189 TGACATATGGTTACCACCCTAGTCAAATCCCCTTCCTTTCTGTT
1 TGACGTATGGTTACCACCCTGGTCAAATCTCTTTCCTTTATGTT
*
11233 TGAC--ATGGTTATCACC
1 TGACGTATGGTTACCACC
11249 TTAGTCAATT
Statistics
Matches: 149, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
42 15 0.10
43 5 0.03
44 112 0.75
45 14 0.09
46 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (44 bp):
TGACGTATGGTTACCACCCTGGTCAAATCTCTTTCCTTTATGTT
Found at i:11170 original size:132 final size:130
Alignment explanation
Indices: 10990--11323 Score: 390
Period size: 132 Copynumber: 2.6 Consensus size: 130
10980 TTAGACCTTG
* * *
10990 GTCAAACTTTTCTCATTTCAGTCTGACG-TATGGTTACCACCCTGGTCAGATTCTTTTTATTCTG
1 GTCAAACTTTTCTCATTTCAGTCT-AGGATATGGTTACCACCCTAGTCAGATTCTTCTTATTCTG
* * * * *
11054 ATTTGACGTATGGCTACCACCTTGGTCAAATCTCTTTCCTTTATGTTTGACATATGGTTATCACC
65 ATTTGACATATGGCTACCACCCTAGTCAAATCCCCTTCCTTTATGTTTGAC--ATGGTTATCACC
11119 CTA
128 CTA
* * * *
11122 GTCAAACTTTTCTCATTTCAATCTAGGATATGGTTACCACCCTAGTCAGATT-TGCCTCATTTTG
1 GTCAAACTTTTCTCATTTCAGTCTAGGATATGGTTACCACCCTAGTCAGATTCT-TCTTATTCTG
* * *
11186 ATTTGACATATGGTTACCACCCTAGTCAAATCCCCTTCCTTTCTGTTTGACATGGTTATCACCTT
65 ATTTGACATATGGCTACCACCCTAGTCAAATCCCCTTCCTTTATGTTTGACATGGTTATCACCCT
11251 A
130 A
* ** * * * *
11252 GTC-AA-TTTTTTTGTTTCAGTCT-GACATATGGTTACTACCTTAGTCAAATTCTTCTTATTCTG
1 GTCAAACTTTTCTCATTTCAGTCTAG-GATATGGTTACCACCCTAGTCAGATTCTTCTTATTCTG
11314 ATTTGACATA
65 ATTTGACATA
11324 CGATTTTGCC
Statistics
Matches: 172, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
127 1 0.01
128 52 0.30
129 3 0.02
130 17 0.10
131 3 0.02
132 96 0.56
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (130 bp):
GTCAAACTTTTCTCATTTCAGTCTAGGATATGGTTACCACCCTAGTCAGATTCTTCTTATTCTGA
TTTGACATATGGCTACCACCCTAGTCAAATCCCCTTCCTTTATGTTTGACATGGTTATCACCCTA
Found at i:11538 original size:101 final size:101
Alignment explanation
Indices: 11357--11599 Score: 262
Period size: 101 Copynumber: 2.4 Consensus size: 101
11347 TCTCTTTCCT
11357 ATTTGACATATGGTTACCACCCTAGTCAAACCCTTCTAACACTCTGACTAACCTTTTAACTAATT
1 ATTTGACATATGGTTACCACCCTAGTCAAACCCTTCTAACACTCTGACTAACCTTTTAACTAATT
11422 GACTTCATCGATTTTGCTCAGACTCTTTTCATTCTG
66 GACTTCATCGATTTTGCTCAGACTCTTTTCATTCTG
* * * * * * * *
11458 ATTTGACGTGTGGTTACCA-CCTTGATCATACCCTTCTAACCCTTTGACTAACCTTTTAATTGAT
1 ATTTGACATATGGTTACCACCCTAG-TCAAACCCTTCTAACACTCTGACTAACCTTTTAACTAAT
* * * * * *
11522 TGACTTCATTGGTTTTGCCTTCATCAACCCATCT-ATTC--
65 TGACTTCATCGATTTTG-C-TCA--GACTCTTTTCATTCTG
*
11560 ATTTGACATGATGGTT-CTACCCTAGTCAAACCCTTCTAAC
1 ATTTGACAT-ATGGTTACCACCCTAGTCAAACCCTTCTAAC
11600 TTTCTTACCT
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
100 4 0.03
101 66 0.57
102 25 0.22
103 12 0.10
104 4 0.03
105 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (101 bp):
ATTTGACATATGGTTACCACCCTAGTCAAACCCTTCTAACACTCTGACTAACCTTTTAACTAATT
GACTTCATCGATTTTGCTCAGACTCTTTTCATTCTG
Found at i:11651 original size:42 final size:41
Alignment explanation
Indices: 11598--12094 Score: 349
Period size: 42 Copynumber: 11.8 Consensus size: 41
11588 AACCCTTCTA
* * *
11598 ACTTTCTTACCTTTAGTCTTCCTGTCAGTTTTGACCCTGGAA
1 ACTTT-TTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
* *
11640 ACATTTTTACCTTTAGTCTGCTTGTCAGATTTGACCCTGGAG
1 AC-TTTTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
* * *
11682 ACTTTCTTACCTTTAGTCTACCTATCGGCTTTGACCCTGGAG
1 ACTTT-TTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
* * * * *
11724 ACTTCCTAACTTTTAGTTTGCCTGTC-GACTTTGACCCTTGAG
1 ACTT-TTTACCTTTAGTCTGCCTGTCAG-CTTTGACCCTGGAG
* * *
11766 ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAG
1 ACTT-TTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
* * * * *
11808 ACTTTTTTACCCTTAGTCTGCTTGTCAGCTTGGATCTTGGAG
1 AC-TTTTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
* ** * * *
11850 AGTCCCTTACCCTTAGTCTGCCTATC-GACTTTGACCCTAGAG
1 ACT-TTTTACCTTTAGTCTGCCTGTCAG-CTTTGACCCTGGAG
* * ** * * *
11892 ACTTCCTTACCCTTAGTCTATCTGCCGGCTTTAACCCTAGG-G
1 ACTT-TTTACCTTTAGTCTGCCTGTCAGCTTTGACCCT-GGAG
* * ** *
11934 ACTTCCTTACCTTTAGTCTGCCTATTTGCTTTGACCTTGGAG
1 ACTT-TTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
* * * * *
11976 ACTTTCTTTCCTTTAGTATGCCTATTAGCTTTAACCC-GAGAG
1 ACTTT-TTACCTTTAGTCTGCCTGTCAGCTTTGACCCTG-GAG
* * *
12018 ATTTTTTTACCTTTAGTCTGCTTGT-AGGCTTTGACCTTGGAG
1 A-CTTTTTACCTTTAGTCTGCCTGTCA-GCTTTGACCCTGGAG
* *
12060 ACTTCTTTTCCCTTT-GTCTGCCTGTCGGCTTTGAC
1 AC-T-TTTTACCTTTAGTCTGCCTGTCAGCTTTGAC
12095 TCATGAGACT
Statistics
Matches: 364, Mismatches: 71, Indels: 40
0.77 0.15 0.08
Matches are distributed among these distances:
41 10 0.03
42 333 0.91
43 21 0.06
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (41 bp):
ACTTTTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
Found at i:11739 original size:84 final size:84
Alignment explanation
Indices: 11598--12094 Score: 394
Period size: 84 Copynumber: 5.9 Consensus size: 84
11588 AACCCTTCTA
* * * * * * *
11598 ACTTTCTTACCTTTAGTCTTCCTGTCAGTTTTGACCCTGGAAACATT-TTTACCTTTAGTCTGCT
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGAC-TTCCTTACCTTTAGTCTGCT
*
11662 TGTCAGATTTGACCCTGGAG
65 TGTCAGCTTTGACCCTGGAG
* * * * * *
11682 ACTTTCTTACCTTTAGTCTACCTATCGGCTTTGACCCTGGAGACTTCCTAACTTTTAGTTTGCCT
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCTT
*
11747 GTC-GACTTTGACCCTTGAG
66 GTCAG-CTTTGACCCTGGAG
* * * * ** *
11766 ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTTTTTACCCTTAGTCTGCTT
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCTT
* * *
11831 GTCAGCTTGGATCTTGGAG
66 GTCAGCTTTGACCCTGGAG
* * * * * * *
11850 AGTCCCTTACCCTTAGTCTGCCTATCGACTTTGACCCTAGAGACTTCCTTACCCTTAGTCT-ATC
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCT-
* * *
11914 TGCCGGCTTTAACCCTAGG-G
65 TGTCAGCTTTGACCCT-GGAG
** * * * * *
11934 ACTTCCTTACCTTTAGTCTGCCTATTTGCTTTGACCTTGGAGACTTTCTTTCCTTTAGTATGCCT
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCTT
* * *
11999 ATTAGCTTTAACCC-GAGAG
66 GTCAGCTTTGACCCTG-GAG
* ** * * * * * * *
12018 ATTTTTTTACCTTTAGTCTGCTTGTAGGCTTTGACCTTGGAGACTTCTTTTCCCTTT-GTCTGCC
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGACTTC-CTTACCTTTAGTCTGCT
*
12082 TGTCGGCTTTGAC
65 TGTCAGCTTTGAC
12095 TCATGAGACT
Statistics
Matches: 324, Mismatches: 80, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
82 1 0.00
83 5 0.02
84 308 0.95
85 10 0.03
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (84 bp):
ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCTT
GTCAGCTTTGACCCTGGAG
Found at i:11884 original size:168 final size:168
Alignment explanation
Indices: 11598--11980 Score: 478
Period size: 168 Copynumber: 2.3 Consensus size: 168
11588 AACCCTTCTA
* * * * * *
11598 ACTTTCTTACCTTTAGTCTTCCTGTCAGTTTTGACCCTGGAAACATTTTTACCTTTAGTCTGCTT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTTTTTACCCTTAGTCTGCTT
* ** * * *
11663 GTCAGATTTGACCCTGGAGACTTTCTTACCTTTAGTCTACCTATCGGCTTTGACCCTGGAGACTT
66 GTCAGATTGGACCCTGGAGACTCCCTTACCCTTAGTCTACCTATCGACTTTGACCCTAGAGACTT
** * * * * *
11728 CCTAACTTTTAGTTTGCCTGTCGACTTTGACCCTTGAG
131 CCTAACCCTTAGTCTACCTGCCGACTTTAACCCTAGAG
11766 ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTTTTTACCCTTAGTCTGCTT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTTTTTACCCTTAGTCTGCTT
* * * * *
11831 GTCAGCTTGGATCTTGGAGAGTCCCTTACCCTTAGTCTGCCTATCGACTTTGACCCTAGAGACTT
66 GTCAGATTGGACCCTGGAGACTCCCTTACCCTTAGTCTACCTATCGACTTTGACCCTAGAGACTT
* * * *
11896 CCTTACCCTTAGTCTATCTGCCGGCTTTAACCCTAGGG
131 CCTAACCCTTAGTCTACCTGCCGACTTTAACCCTAGAG
* ** *
11934 ACTTCCTTACCTTTAGTCTGCCTATTTGCTTTGACCTTGGAGACTTT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTT
11981 CTTTCCTTTA
Statistics
Matches: 183, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
168 183 1.00
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.39
Consensus pattern (168 bp):
ACTTCCTTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTTTTTACCCTTAGTCTGCTT
GTCAGATTGGACCCTGGAGACTCCCTTACCCTTAGTCTACCTATCGACTTTGACCCTAGAGACTT
CCTAACCCTTAGTCTACCTGCCGACTTTAACCCTAGAG
Found at i:12104 original size:126 final size:126
Alignment explanation
Indices: 11646--12094 Score: 440
Period size: 126 Copynumber: 3.6 Consensus size: 126
11636 GGAAACATTT
* * *
11646 TTACCTTTAGTCTGCTTGTCAGATTTGACCCTGGAGACTTTCTTACCTTTAGTCTACCTATCGGC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTATCGGC
* * * * * *
11711 TTTGACCCTGGAGACTTCCTAACTTTTAGTTTGCCTGTCGACTTTGACCCTTGAGACTTCC
66 TTTGACCTTGGAGACTTCCTTACCTTTAGTATGCCTATCGACTTTGACCCTAGAGACTTCC
* * * * * * *
11772 TTACCTTTAGTCTGCCTGTCAGTTTTGACCTTGGAGACTTTTTTACCCTTAGTCTGCTTGTCAGC
1 TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTATCGGC
* * * * * *
11837 TTGGATCTTGGAGAGTCCCTTACCCTTAGTCTGCCTATCGACTTTGACCCTAGAGACTTCC
66 TTTGACCTTGGAGACTTCCTTACCTTTAGTATGCCTATCGACTTTGACCCTAGAGACTTCC
* * * * * * * **
11898 TTACCCTTAGTCT-ATCTGCCGGCTTTAACCCTAGG-GACTTCCTTACCTTTAGTCTGCCTATTT
1 TTACCTTTAGTCTGCT-TGTCAGCTTTGA-CCTTGGAGACTTTCTTACCTTTAGTCTGCCTATCG
* * * * * * **
11961 GCTTTGACCTTGGAGACTTTCTTTCCTTTAGTATGCCTAT-TAGCTTTAACCCGAGAGATTTTT
64 GCTTTGACCTTGGAGACTTCCTTACCTTTAGTATGCCTATCGA-CTTTGACCCTAGAGACTTCC
* * *
12024 TTACCTTTAGTCTGCTTGT-AGGCTTTGACCTTGGAGACTTCTTTTCCCTTT-GTCTGCCTGTCG
1 TTACCTTTAGTCTGCTTGTCA-GCTTTGACCTTGGAGACTT-TCTTACCTTTAGTCTGCCTATCG
12087 GCTTTGAC
64 GCTTTGAC
12095 TCATGAGACT
Statistics
Matches: 255, Mismatches: 61, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
125 6 0.02
126 236 0.93
127 13 0.05
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (126 bp):
TTACCTTTAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTATCGGC
TTTGACCTTGGAGACTTCCTTACCTTTAGTATGCCTATCGACTTTGACCCTAGAGACTTCC
Found at i:12639 original size:30 final size:33
Alignment explanation
Indices: 12604--12666 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
12594 GTTATTAAAA
* *
12604 AAATAAAAA-ATAA-AA-AATATAATCATAATT
1 AAATAAAAATATAATAATAAAATAATAATAATT
12634 AAATAAAAATATAATAATAAAATAATAATAATT
1 AAATAAAAATATAATAATAAAATAATAATAATT
12667 TTAAAATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.32
31 4 0.14
32 2 0.07
33 13 0.46
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (33 bp):
AAATAAAAATATAATAATAAAATAATAATAATT
Found at i:12641 original size:22 final size:23
Alignment explanation
Indices: 12611--12653 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12601 AAAAAATAAA
*
12611 AAATAAAAAATATAATCATAATT
1 AAATAAAAAATATAATAATAATT
12634 AAAT-AAAAATATAATAATAA
1 AAATAAAAAATATAATAATAA
12654 AATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAAAAAATATAATAATAATT
Found at i:12660 original size:22 final size:22
Alignment explanation
Indices: 12605--12661 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12595 TTATTAAAAA
12605 AATAAAA-AATAAAAAATATAAT
1 AATAAAATAAT-AAAAATATAAT
* *
12627 CAT-AATTAAATAAAAATATAAT
1 AATAAAAT-AATAAAAATATAAT
12649 AATAAAATAATAA
1 AATAAAATAATAA
12662 TAATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 2 0.07
22 20 0.71
23 6 0.21
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AATAAAATAATAAAAATATAAT
Found at i:13148 original size:28 final size:31
Alignment explanation
Indices: 13093--13157 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 31
13083 AATAAATAAG
* *
13093 AAGAAATAGTAACAAGCTGTAGCGATGAA-A
1 AAGAAATAGAAACAAGCTGTAGCAATGAAGA
*
13123 AAGAAAT-GAAAC-AGCTGTTGCAATGAAGA
1 AAGAAATAGAAACAAGCTGTAGCAATGAAGA
13152 AAGAAA
1 AAGAAA
13158 CAATTCAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.42
29 11 0.35
30 7 0.23
ACGTcount: A:0.52, C:0.09, G:0.23, T:0.15
Consensus pattern (31 bp):
AAGAAATAGAAACAAGCTGTAGCAATGAAGA
Found at i:13814 original size:128 final size:128
Alignment explanation
Indices: 13586--13841 Score: 485
Period size: 128 Copynumber: 2.0 Consensus size: 128
13576 ATTTGTATCG
*
13586 ATACATTTAGGTTGACTTAGGCTATAACGGCCAAAACCCTAAAAAGTATCGATACATATCCAGAT
1 ATACATTTAGGTTGACTTAGGCTATAACGGCCAAAACCCTAAAAAGTATCGATACACATCCAGAT
13651 GTATCGATACATTATGCTTTGTATCAATACATTATATCGATGCATGTTCATTGTATCAATACA
66 GTATCGATACATTATGCTTTGTATCAATACATTATATCGATGCATGTTCATTGTATCAATACA
* *
13714 ATACATTTAGGTTGACTTAGGCTATAATGGTCAAAACCCTAAAAAGTATCGATACACATCCAGAT
1 ATACATTTAGGTTGACTTAGGCTATAACGGCCAAAACCCTAAAAAGTATCGATACACATCCAGAT
13779 GTATCGATACATTATGCTTTGTATCAATACATTATATCGATGCATGTTCATTGTATCAATACA
66 GTATCGATACATTATGCTTTGTATCAATACATTATATCGATGCATGTTCATTGTATCAATACA
13842 TACTCAATTG
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (128 bp):
ATACATTTAGGTTGACTTAGGCTATAACGGCCAAAACCCTAAAAAGTATCGATACACATCCAGAT
GTATCGATACATTATGCTTTGTATCAATACATTATATCGATGCATGTTCATTGTATCAATACA
Found at i:13835 original size:19 final size:19
Alignment explanation
Indices: 13808--13863 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
13798 TGTATCAATA
* * *
13808 CATTATATCGATGCATGTT
1 CATTGTATCGATACATGCT
* *
13827 CATTGTATCAATACATACT
1 CATTGTATCGATACATGCT
13846 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
13864 AAATTGGTAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:18286 original size:13 final size:13
Alignment explanation
Indices: 18268--18327 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
18258 GCCAAGGAAA
18268 TGTATCGATACAT
1 TGTATCGATACAT
*
18281 TGTATCAATACA-
1 TGTATCGATACAT
*
18293 T-TA-C--T-CAA
1 TGTATCGATACAT
18301 TGTATCGATACAT
1 TGTATCGATACAT
18314 TGTATCGATACAT
1 TGTATCGATACAT
18327 T
1 T
18328 ACTCAATGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 2 0.05
13 27 0.69
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18308 original size:33 final size:33
Alignment explanation
Indices: 18266--18348 Score: 157
Period size: 33 Copynumber: 2.5 Consensus size: 33
18256 CTGCCAAGGA
18266 AATGTATCGATACATTGTATCAATACATTACTC
1 AATGTATCGATACATTGTATCAATACATTACTC
*
18299 AATGTATCGATACATTGTATCGATACATTACTC
1 AATGTATCGATACATTGTATCAATACATTACTC
18332 AATGTATCGATACATTG
1 AATGTATCGATACATTG
18349 ATCTTTGTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATTGTATCAATACATTACTC
Found at i:18339 original size:20 final size:19
Alignment explanation
Indices: 18281--18366 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
18271 ATCGATACAT
*
18281 TGTATCAATACATTACTCAA
1 TGTATCGATACATTA-TCAA
18301 TGTATCGATAC---AT---
1 TGTATCGATACATTATCAA
18314 TGTATCGATACATTACTCAA
1 TGTATCGATACATTA-TCAA
**
18334 TGTATCGATACATTGATCTT
1 TGTATCGATACATT-ATCAA
18354 TGTATCGATACAT
1 TGTATCGATACAT
18367 CTAGGAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.20
16 2 0.04
17 2 0.04
20 39 0.71
21 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATTATCAA
Found at i:22954 original size:20 final size:21
Alignment explanation
Indices: 22931--22970 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
22921 AAATTTCCAA
22931 AATGTATTGATACAT-TGAAT
1 AATGTATTGATACATCTGAAT
22951 AATGTATTGATACATCTGAA
1 AATGTATTGATACATCTGAA
22971 AAAAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (21 bp):
AATGTATTGATACATCTGAAT
Found at i:27838 original size:79 final size:80
Alignment explanation
Indices: 27705--27856 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 80
27695 ACAACTGGGC
* *
27705 TAGAGTATCCCCTGACTATGGAAGAATCGGTGTTCTGGAAATAAAATCGAGGTTGGAGTATCCCC
1 TAGAGTATCCCCTGACTATGGAAAAATCGGTGTTCTAGAAATAAAATCGAGGTTGGAGTAT-CCC
27770 TTGAAAATAGCAAGGT
65 TTGAAAATAGCAAGGT
* *
27786 TAGAGTATCCCC-GA-T-TGTGAAAAATCGGTGTTTTAGAAATAAAA-CTGGGGTTGGAGTATCC
1 TAGAGTATCCCCTGACTATG-GAAAAATCGGTGTTCTAGAAATAAAATC-GAGGTTGGAGTATCC
*
27847 CTTGGAAATA
64 CTTGAAAATA
27857 ATAGGGGTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
78 14 0.22
79 36 0.56
80 2 0.03
81 12 0.19
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (80 bp):
TAGAGTATCCCCTGACTATGGAAAAATCGGTGTTCTAGAAATAAAATCGAGGTTGGAGTATCCCT
TGAAAATAGCAAGGT
Found at i:27944 original size:106 final size:109
Alignment explanation
Indices: 27786--28012 Score: 309
Period size: 106 Copynumber: 2.1 Consensus size: 109
27776 ATAGCAAGGT
* * *
27786 TAGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCTT-
1 TAGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCTTC
* *
27850 GGAAATAATAGGGG-TGGAGTATC-C-CCGATGAAATAACGGGGC
66 GAAAATAA-AGGGGTTGGAGTATCTCAACGATGAAATAACGGGGC
* *
27892 TAGAGTATCCTCGATTGTGAAAAATTGGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCTTC
1 TAGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCTTC
* ** *
27957 GAAAATAACGGGGTTGGAGTATCTTCAATTATGAAATAACGGGGT
66 GAAAATAAAGGGGTTGGAGTATC-TCAACGATGAAATAACGGGGC
28002 TAGAGTATCCC
1 TAGAGTATCCC
28013 TGAGATGAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
106 63 0.61
107 16 0.15
109 1 0.01
110 24 0.23
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (109 bp):
TAGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAAAAATAAAACCGAGGTTGGAGTATCCCTTC
GAAAATAAAGGGGTTGGAGTATCTCAACGATGAAATAACGGGGC
Found at i:30320 original size:20 final size:21
Alignment explanation
Indices: 30295--30369 Score: 93
Period size: 20 Copynumber: 3.7 Consensus size: 21
30285 AAAATGCTTG
*
30295 AATGTATCGATACATTGA-AA
1 AATGTATCGATACAATGATAA
*
30315 AATGTATCGATACAATGATCA
1 AATGTATCGATACAATGATAA
*
30336 AA-GTATCGATACAATGATCA
1 AATGTATCGATACAATGATAA
*
30356 AA-GTATCAATACAA
1 AATGTATCGATACAA
30370 ATTGTGAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 48 0.94
21 3 0.06
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACAATGATAA
Found at i:31126 original size:62 final size:62
Alignment explanation
Indices: 30951--31401 Score: 628
Period size: 61 Copynumber: 7.4 Consensus size: 62
30941 AAATGGGTCT
* * * * ** * *
30951 TGCTCCTTCAGGACTAG-AAGGTGCCACCAACTTGTATGGGCTTTGCAAGGAAAAAGCATCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
31012 TGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTCTGAGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
31073 TGCTTTTTGAAGACTGGAAAAGTGCCACCAACTTATGTAGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
31135 TGCTCTTTGAGGACTAG-TAGGTGCCACCAGCTTGTGTGGGCTTTAAAA-AAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
31195 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
31257 TGCTCTTTGAGGACTAGAAAA-TGCCATCAACTTGTGTGGGCTTTAAAAGG-AAAGGCAT-C
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
31316 TGTTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
31378 TGCTCTTTGAGGACTAGAAAAGTG
1 TGCTCTTTGAGGACTAGAAAAGTG
31402 AAAGGAGAAA
Statistics
Matches: 346, Mismatches: 37, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
59 20 0.06
60 64 0.18
61 153 0.44
62 109 0.32
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (62 bp):
TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:32398 original size:8 final size:8
Alignment explanation
Indices: 32375--32434 Score: 66
Period size: 9 Copynumber: 7.0 Consensus size: 8
32365 CTTTCCTCTC
*
32375 TTTTTTTC
1 TTTTTTTG
32383 TTTGTTTTG
1 TTT-TTTTG
32392 TTTTTTTG
1 TTTTTTTG
*
32400 TTTTTTTTT
1 -TTTTTTTG
32409 TGTTTTTTG
1 T-TTTTTTG
32418 TTTTTTTGG
1 TTTTTTT-G
32427 TTTTTTTG
1 TTTTTTTG
32435 AAAAAAAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
8 16 0.36
9 29 0.64
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:32398 original size:18 final size:16
Alignment explanation
Indices: 32375--32434 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
32365 CTTTCCTCTC
*
32375 TTTTTTTCTTTGTTTT
1 TTTTTTTTTTTGTTTT
* *
32391 GTTTTTTTGTT-TTTT
1 TTTTTTTTTTTGTTTT
*
32406 TTTTGTTTTTTGTTTT
1 TTTTTTTTTTTGTTTT
*
32422 TTTGGTTTTTTTG
1 TTT-TTTTTTTTG
32435 AAAAAAAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
15 12 0.35
16 15 0.44
17 7 0.21
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTGTTTT
Found at i:32404 original size:26 final size:26
Alignment explanation
Indices: 32375--32433 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
32365 CTTTCCTCTC
*
32375 TTTTTTTCTT-TGTTTTGTTTTTTTGT
1 TTTTTTT-TTGTGTTTTGTTTTTTTGG
*
32401 TTTTTTTTTGTTTTTTGTTTTTTTGG
1 TTTTTTTTTGTGTTTTGTTTTTTTGG
32427 TTTTTTT
1 TTTTTTT
32434 GAAAAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (26 bp):
TTTTTTTTTGTGTTTTGTTTTTTTGG
Found at i:32431 original size:7 final size:7
Alignment explanation
Indices: 32387--32423 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
32377 TTTTTCTTTG
32387 TTTTGTT
1 TTTTGTT
*
32394 TTTT-TG
1 TTTTGTT
32400 TTTT-TT
1 TTTTGTT
32406 TTTTGTT
1 TTTTGTT
32413 TTTTGTT
1 TTTTGTT
32420 TTTT
1 TTTT
32424 TGGTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (7 bp):
TTTTGTT
Found at i:33729 original size:13 final size:13
Alignment explanation
Indices: 33688--33736 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
33678 CCGTTACAAG
33688 CAATGTATCGATA
1 CAATGTATCGATA
33701 CAAT-T-TC-AT-
1 CAATGTATCGATA
33710 C-ATGTATCGATA
1 CAATGTATCGATA
*
33722 CAATGTATCAATA
1 CAATGTATCGATA
33735 CA
1 CA
33737 TTGTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 4 0.13
12 2 0.07
13 16 0.53
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:33752 original size:33 final size:34
Alignment explanation
Indices: 33688--33757 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
33678 CCGTTACAAG
* *
33688 CAATGTATCGATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCACCATGTATCGATA
33722 CAATGTATCAATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCAATACAATT-TCACCATGTATCGATA
33755 CAA
1 CAA
33758 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCACCATGTATCGATA
Found at i:33830 original size:19 final size:19
Alignment explanation
Indices: 33786--33841 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
33776 CTTCCAGTTT
* *
33786 CATGTATCGATATAATTGTC
1 CATGTATCGATACAA-TGAC
*
33806 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
33825 CATGTATCGATACAATG
1 CATGTATCGATACAATG
33842 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:33844 original size:13 final size:13
Alignment explanation
Indices: 33826--33865 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
33816 TACAATGAGC
33826 ATGTATCGATACA
1 ATGTATCGATACA
33839 ATGTATCGATACA
1 ATGTATCGATACA
33852 ATGTATCGATACA
1 ATGTATCGATACA
33865 A
1 A
33866 AGTAGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34435 original size:21 final size:20
Alignment explanation
Indices: 34411--34477 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 20
34401 TTTCGTTTTA
34411 CTCCCCTTAATTAAAGAATTT
1 CTCCCCTTAA-TAAAGAATTT
*
34432 CTCCTCTTAA-AAAGAA-TT
1 CTCCCCTTAATAAAGAATTT
34450 CTCCCCCTTAATCAAAGAATTT
1 CT-CCCCTTAAT-AAAGAATTT
34472 CTCCCC
1 CTCCCC
34478 CTTTGTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 4 0.10
19 13 0.32
21 19 0.47
22 4 0.10
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (20 bp):
CTCCCCTTAATAAAGAATTT
Found at i:34487 original size:22 final size:21
Alignment explanation
Indices: 34413--34480 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 21
34403 TCGTTTTACT
*
34413 CCCCTTAATTAAAGAATT-TC
1 CCCCTTAATCAAAGAATTCTC
*
34433 TCCTCTTAA--AAAGAATTCTC
1 -CCCCTTAATCAAAGAATTCTC
34453 CCCCTTAATCAAAGAATTTCTC
1 CCCCTTAATCAAAGAA-TTCTC
34475 CCCCTT
1 CCCCTT
34481 TGTCAAATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 15 0.37
20 2 0.05
21 13 0.32
22 11 0.27
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.34
Consensus pattern (21 bp):
CCCCTTAATCAAAGAATTCTC
Found at i:36318 original size:13 final size:13
Alignment explanation
Indices: 36300--36328 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36290 AAATAGTACC
36300 CAATGTATCGATA
1 CAATGTATCGATA
36313 CAATGTATCGATA
1 CAATGTATCGATA
36326 CAA
1 CAA
36329 GGAATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:40891 original size:3 final size:3
Alignment explanation
Indices: 40878--40918 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
40868 CTTCATCTGA
* * *
40878 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
40919 TGATGGTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:42512 original size:13 final size:13
Alignment explanation
Indices: 42471--42519 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
42461 CCGTTACAAG
42471 CAATGTATCGATA
1 CAATGTATCGATA
42484 CAAT-T-TC-AT-
1 CAATGTATCGATA
42493 C-ATGTATCGATA
1 CAATGTATCGATA
*
42505 CAATGTATCAATA
1 CAATGTATCGATA
42518 CA
1 CA
42520 TTGTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 4 0.13
12 2 0.07
13 16 0.53
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:42535 original size:33 final size:34
Alignment explanation
Indices: 42471--42540 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
42461 CCGTTACAAG
* *
42471 CAATGTATCGATACAATTTCATCATGTATCGATA
1 CAATGTATCAATACAATTTCACCATGTATCGATA
42505 CAATGTATCAATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCAATACAATT-TCACCATGTATCGATA
42538 CAA
1 CAA
42541 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (34 bp):
CAATGTATCAATACAATTTCACCATGTATCGATA
Found at i:42613 original size:19 final size:19
Alignment explanation
Indices: 42569--42624 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
42559 CTGCCAATTT
*
42569 CATGTATCGATATAATTGTC
1 CATGTATCGATATAA-TGAC
* *
42589 CATGTATCGATACAATGAG
1 CATGTATCGATATAATGAC
42608 CATGTATCGATATAATG
1 CATGTATCGATATAATG
42625 TATTGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATATAATGAC
Found at i:42651 original size:33 final size:32
Alignment explanation
Indices: 42590--42652 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
42580 ATAATTGTCC
*
42590 ATGTATCGATACAATGAGCATGTATCGATATA
1 ATGTATCGATACAAAGAGCATGTATCGATATA
* *
42622 ATGTATTGATACAAAGCAGTATGTATCGATA
1 ATGTATCGATACAAAG-AGCATGTATCGATA
42653 CATCTAGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (32 bp):
ATGTATCGATACAAAGAGCATGTATCGATATA
Found at i:48827 original size:192 final size:192
Alignment explanation
Indices: 48543--49108 Score: 1087
Period size: 192 Copynumber: 2.9 Consensus size: 192
48533 TGGGGTCTTG
48543 ACTTCTTTAACACTCTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
1 ACTTCTTTAACACTCTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
* *
48608 AACGTGATTAGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
66 GACGTGATTGGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
48673 CTCTATTTAGCAAACCCTGCACTTTTCTCTTGAATGACCTTGTGCCCCGACACCTCTATTAC
131 CTCTATTTAGCAAACCCTGCACTTTTCTCTTGAATGACCTTGTGCCCCGACACCTCTATTAC
*
48735 ACTTCTTTAACACTTTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
1 ACTTCTTTAACACTCTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
48800 GACGTGATTGGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
66 GACGTGATTGGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
*
48865 CTCTATTTAGCAAACCCTACACTTTTCTCTTGAATGACCTTGTGCCCCGACACCTCTATTAC
131 CTCTATTTAGCAAACCCTGCACTTTTCTCTTGAATGACCTTGTGCCCCGACACCTCTATTAC
48927 ACTTCTTTAACACTCTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
1 ACTTCTTTAACACTCTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
48992 GACGTGATTGGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
66 GACGTGATTGGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
*
49057 CTCTATTTAGCAAACCCTGCACTTTTCTCTTGAATGATCTTGTGCCCCGACA
131 CTCTATTTAGCAAACCCTGCACTTTTCTCTTGAATGACCTTGTGCCCCGACA
49109 TGATATTCGT
Statistics
Matches: 367, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 367 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (192 bp):
ACTTCTTTAACACTCTTCTTGACCCAACAGCGTTTCCCTTTCATTATGGCATCTGTCATTGGTTC
GACGTGATTGGGGAGTGGATTGGCCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACAC
CTCTATTTAGCAAACCCTGCACTTTTCTCTTGAATGACCTTGTGCCCCGACACCTCTATTAC
Found at i:55267 original size:78 final size:79
Alignment explanation
Indices: 55122--55275 Score: 181
Period size: 78 Copynumber: 2.0 Consensus size: 79
55112 CTTGACTATG
* * *
55122 GAAAAATCGATGTTCTGAAAATAAAATCGAGGTTAGAGTATCCCCTTGAAAATAACAACGTTGGA
1 GAAAAATCGATGCTCTGAAAATAAAATCGAGGTTAGAGTATCCCCTTAAAAATAACAACGTTAGA
*
55187 GTATTCCCGATTGT
66 GTATCCCCGATTGT
* * * *
55201 GAAAAATCGGTGCT-TGAAAATAAAA-CTGAGGTTGGAGTAT-CCCTTCAAAAATAA-TAGGATT
1 GAAAAATCGATGCTCTGAAAATAAAATC-GAGGTTAGAGTATCCCCTT-AAAAATAACAACG-TT
55262 AGAGTATCCCCGAT
63 AGAGTATCCCCGAT
55276 GAAATAATGG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
77 8 0.12
78 44 0.69
79 12 0.19
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (79 bp):
GAAAAATCGATGCTCTGAAAATAAAATCGAGGTTAGAGTATCCCCTTAAAAATAACAACGTTAGA
GTATCCCCGATTGT
Found at i:58013 original size:21 final size:21
Alignment explanation
Indices: 57989--58028 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57979 GGTACGAAAA
*
57989 AAATTTTGAAATTTA-AAAACT
1 AAATTTAG-AATTTAGAAAACT
58010 AAATTTAGAATTTAGAAAA
1 AAATTTAGAATTTAGAAAA
58029 GTTTGGCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
AAATTTAGAATTTAGAAAACT
Found at i:62711 original size:66 final size:66
Alignment explanation
Indices: 62634--62766 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
62624 AAATACCCTT
62634 ACGGTATACTTTTGACATGAAAGTATCTTAGTAACCCTAAAGGAGCTAAAAATAATCATAAATGG
1 ACGGTATACTTTTGACATGAAAGTATCTTAGTAACCCTAAAGGAGCTAAAAATAATCATAAATGG
62699 G
66 G
*
62700 ACGGTATACTTTTGACATGAAAGTATCTTAGTAACCCTAAAGGGGCTAAAAATAATCATAAATGG
1 ACGGTATACTTTTGACATGAAAGTATCTTAGTAACCCTAAAGGAGCTAAAAATAATCATAAATGG
62765 G
66 G
62766 A
1 A
62767 TGAACCTAGC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (66 bp):
ACGGTATACTTTTGACATGAAAGTATCTTAGTAACCCTAAAGGAGCTAAAAATAATCATAAATGG
G
Found at i:64137 original size:164 final size:162
Alignment explanation
Indices: 63708--64180 Score: 436
Period size: 164 Copynumber: 2.9 Consensus size: 162
63698 GTAAGAAAAT
* * * * * *
63708 AAAATCAAA-ATCAAATACATCATAACCAACATAAAAATCAGATCTAAAAATTATAA-AACAGAT
1 AAAATCAAATATCAAACACATCAAAATCAACACAAAAATAAGATC-AAAAATTACAAGAA-AGAT
** * *
63771 TTGGCCAA-TGATCTTTGGTTTTGGAACAAAATTTTTCAATAATTACAATTAAACCCCTAAATTT
64 TTGGCCAAGTG-TCTTTGGCCTTGGAACAAAATTTTT-AATAATTACAATTAAAACCCTAAA-CT
* * * *
63835 TTTAAAATTACAAATTGATCCTTATATAATCAAACAC
126 TCTAAAATTAAAAATTGATCCTTACATAATAAAACAC
* * * * * * *
63872 AAAATGAGATATATCAAACATATCAATATCAACACCTGAAATCATAAGA--AAAAGTCACTAGAA
1 AAAATCA-A-ATATCAAACACATCAAAATCAACA-C--AAA-AATAAGATCAAAAATTACAAGAA
* ** * *
63935 AGATTTGGCCATGTAACTTGGGCCTTGGAACAAAATTTTTAATAATTACACTTAAAACCCTAAAC
60 AGATTTGGCCAAGTGTCTTTGGCCTTGGAACAAAATTTTTAATAATTACAATTAAAACCCTAAAC
* *
64000 TTCTAAAATTAAAAATTGGTCTTTACATAATTAAAACAC
125 TTCTAAAATTAAAAATTGATCCTTACATAA-TAAAACAC
*
64039 AAAATTAAATATCAAACACATCAAAATCAACACAAAAATAAGATCCAAAAATTACAAGAAAGATT
1 AAAATCAAATATCAAACACATCAAAATCAACACAAAAATAAGAT-CAAAAATTACAAGAAAGATT
** * * * * *
64104 CAGCCAAGTGTTTTTGGCCTTGGAACAAAATTTTCAATATTTACAAAT-AAACCCTTACACTTTC
65 TGGCCAAGTGTCTTTGGCCTTGGAACAAAATTTTTAATAATTACAATTAAAACCC-TAAAC-TTC
64168 TAAAATTACAAAA
128 TAAAATTA-AAAA
64181 GGTCCCAAAC
Statistics
Matches: 246, Mismatches: 47, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
161 6 0.02
162 3 0.01
163 6 0.02
164 64 0.26
165 34 0.14
166 31 0.13
167 52 0.21
168 39 0.16
169 3 0.01
170 3 0.01
171 5 0.02
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (162 bp):
AAAATCAAATATCAAACACATCAAAATCAACACAAAAATAAGATCAAAAATTACAAGAAAGATTT
GGCCAAGTGTCTTTGGCCTTGGAACAAAATTTTTAATAATTACAATTAAAACCCTAAACTTCTAA
AATTAAAAATTGATCCTTACATAATAAAACAC
Found at i:64743 original size:21 final size:19
Alignment explanation
Indices: 64717--64758 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
64707 ATCATAACGG
64717 AAATCAACCTAAATACATCAA
1 AAATCAA-CTAAAT-CATCAA
*
64738 AAATCAAGTAAATCATCAA
1 AAATCAACTAAATCATCAA
64757 AA
1 AA
64759 TTCACAAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 5 0.25
21 7 0.35
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATCAACTAAATCATCAA
Found at i:65640 original size:147 final size:152
Alignment explanation
Indices: 65429--65713 Score: 334
Period size: 147 Copynumber: 1.9 Consensus size: 152
65419 TTTTCACAAA
* *
65429 CTAATTTAATATGAATTTAATAAAAATATTTGATAAATTTTAAAAATTTTAAACTGAGAAAAATC
1 CTAATTTAATATGAA-TT-ATAAAAATATTTGATAAATTTTAAAAATTATAAACTGAAAAAAATC
* * * * *
65494 CAACTAG-AGAAATTTAT-GAATTAAAAACTCTGTATCTCGGTATC-AGAAA-AATTCCAAAACT
64 CAA-TAGAAAAAATTTATAGAATAAAAAACTCTGTATCCCGATAACGA-AAAGAATTCCAAAACT
65555 CATAAAATAAGTTGAATTTTTTGGAG
127 CATAAAATAAGTTGAATTTTTTGGAG
* * *
65581 CTAATTTAATATGAA-T-TAAACA-ATTTGA-AGAATTTTGAAAATTATAAACTTAAAAAAATCC
1 CTAATTTAATATGAATTATAAAAATATTTGATA-AATTTTAAAAATTATAAACTGAAAAAAATCC
* * * * *
65642 TATCGAAAAAATTTATAGAGTAAAAAACTTTGTATCCCGATAACGAAAAGAATTCTAAAACTCAT
65 AATAGAAAAAATTTATAGAATAAAAAACTCTGTATCCCGATAACGAAAAGAATTCCAAAACTCAT
65707 AAAATAA
130 AAAATAA
65714 ATTACATTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
146 3 0.03
147 43 0.38
148 29 0.26
149 22 0.19
150 1 0.01
152 15 0.13
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.32
Consensus pattern (152 bp):
CTAATTTAATATGAATTATAAAAATATTTGATAAATTTTAAAAATTATAAACTGAAAAAAATCCA
ATAGAAAAAATTTATAGAATAAAAAACTCTGTATCCCGATAACGAAAAGAATTCCAAAACTCATA
AAATAAGTTGAATTTTTTGGAG
Found at i:67512 original size:38 final size:38
Alignment explanation
Indices: 67461--67537 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
67451 GTATTTTAAA
*
67461 ATGATTTTTCAACATGCAACAGTGTTGCTGCCAGTAGG
1 ATGATTTTTCAACATGCAACAGTATTGCTGCCAGTAGG
*
67499 ATGATTTTTCAACATGCAACAGTATTGCTGCTAGTAGG
1 ATGATTTTTCAACATGCAACAGTATTGCTGCCAGTAGG
67537 A
1 A
67538 AACAGAGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (38 bp):
ATGATTTTTCAACATGCAACAGTATTGCTGCCAGTAGG
Found at i:69069 original size:13 final size:13
Alignment explanation
Indices: 69051--69075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69041 AGGGTAGCTC
69051 TGTATCGATACAT
1 TGTATCGATACAT
69064 TGTATCGATACA
1 TGTATCGATACA
69076 ACACTCATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70708 original size:43 final size:42
Alignment explanation
Indices: 70655--70820 Score: 109
Period size: 43 Copynumber: 3.7 Consensus size: 42
70645 AGTGTCGGCT
*
70655 GGGACAAAACCATAGGTGCCAACAAGTTAGATGGGTATTGATC
1 GGGACAAAACCATAGGAGCCAACAAGTTAGATGGGTATTGA-C
* ** * * ***
70698 GGGACGAAACCATACAAACTAACAAGTTTGTTTAGAAAAGT-TGTCGAC
1 GGGACAAAACCATAGGAGCCAACAA----G-TTAGATGGGTAT-T-GAC
* * *
70746 TGGGACAAAACCATAGGTGCCAACGAGTTATATGGGTATTGACC
1 -GGGACAAAACCATAGGAGCCAACAAGTTAGATGGGTATTGA-C
* *
70790 GGGACGAAACCATATGAGCCAACAAGTTAGA
1 GGGACAAAACCATAGGAGCCAACAAGTTAGA
70821 AGGATTGACT
Statistics
Matches: 88, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
43 47 0.53
44 8 0.09
45 2 0.02
47 2 0.02
48 9 0.10
49 20 0.23
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (42 bp):
GGGACAAAACCATAGGAGCCAACAAGTTAGATGGGTATTGAC
Found at i:70725 original size:91 final size:92
Alignment explanation
Indices: 70611--70817 Score: 301
Period size: 92 Copynumber: 2.3 Consensus size: 92
70601 TTGACTTGGG
* * *
70611 CGAAACCACACGAACCAACAAGTTTG-TTAGAAAAAG-TGTCGGCTGGGACAAAACCATAGGTGC
1 CGAAACCATACAAACCAACAAGTTTGTTTAG-AAAAGTTGTCGACTGGGACAAAACCATAGGTGC
*
70674 CAACAAGTTAGATGGGTATTGATCGGGA
65 CAACAAGTTAGATGGGTATTGACCGGGA
*
70702 CGAAACCATACAAACTAACAAGTTTGTTTAGAAAAGTTGTCGACTGGGACAAAACCATAGGTGCC
1 CGAAACCATACAAACCAACAAGTTTGTTTAGAAAAGTTGTCGACTGGGACAAAACCATAGGTGCC
* *
70767 AACGAGTTATATGGGTATTGACCGGGA
66 AACAAGTTAGATGGGTATTGACCGGGA
** *
70794 CGAAACCATATGAGCCAACAAGTT
1 CGAAACCATACAAACCAACAAGTT
70818 AGAAGGATTG
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
91 28 0.27
92 75 0.73
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (92 bp):
CGAAACCATACAAACCAACAAGTTTGTTTAGAAAAGTTGTCGACTGGGACAAAACCATAGGTGCC
AACAAGTTAGATGGGTATTGACCGGGA
Found at i:70851 original size:41 final size:40
Alignment explanation
Indices: 70806--71110 Score: 163
Period size: 41 Copynumber: 7.5 Consensus size: 40
70796 AAACCATATG
* * *
70806 AGCCAACAAGTTAGAAGGATTGACTAGGGCGAAATTGATAA
1 AGCCAACAAGTTAAAAGG-TTGACCAAGGCGAAATTGATAA
* * ** **
70847 AGCCAACTAA-TTAAAAAGTTGGCCAAGGTAAAATCAATAA
1 AGCCAAC-AAGTTAAAAGGTTGACCAAGGCGAAATTGATAA
* * * * *
70887 A-CCTAACATGTTAAAAAGGTTGACCAAGGCAAAAATAATGA
1 AGCC-AACAAGTT-AAAAGGTTGACCAAGGCGAAATTGATAA
* * *
70928 AGTCAACCAA-TTAAAAAGTTGACCAAGGCGAAACTGATAA
1 AGCCAA-CAAGTTAAAAGGTTGACCAAGGCGAAATTGATAA
* * *** ***
70968 AGCCAACATGTTAGAAGGGTTGACTTGGGCGAAACCAATAA
1 AGCCAACAAGTTA-AAAGGTTGACCAAGGCGAAATTGATAA
* * * * *
71009 AGTCAACCAA-TTAAAAGGTTGGCCAGGGCAAAATCGATAA
1 AGCCAA-CAAGTTAAAAGGTTGACCAAGGCGAAATTGATAA
* * *
71049 AGCCAATC-TGTTAGAAAGGTTGACTAAGACGAAATTGATAA
1 AGCCAA-CAAGTTA-AAAGGTTGACCAAGGCGAAATTGATAA
* *
71090 AGTCAACCAA-TTAAAAAGTTG
1 AGCCAA-CAAGTTAAAAGGTTG
71111 GCGAGGGTGA
Statistics
Matches: 198, Mismatches: 54, Indels: 25
0.71 0.19 0.09
Matches are distributed among these distances:
39 5 0.03
40 88 0.44
41 98 0.49
42 7 0.04
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (40 bp):
AGCCAACAAGTTAAAAGGTTGACCAAGGCGAAATTGATAA
Found at i:70968 original size:81 final size:81
Alignment explanation
Indices: 70806--71809 Score: 517
Period size: 81 Copynumber: 12.4 Consensus size: 81
70796 AAACCATATG
* * * * * *
70806 AGCCAACAAGTTAG-AAGGATTGACTAGGGCGAAATTGATAAAGCCAACTAATTAAAAAGTTGGC
1 AGCCAACATGTTAGAAAGG-TTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGC
* *
70870 CAAGGTAAAATCAATAA
65 CAAGGCAAAATCGATAA
* * * * *
70887 A-CCTAACATGTTAAAAAGGTTGACCAAGGCAAAAATAATGAAGTCAACCAATTAAAAAGTTGAC
1 AGCC-AACATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGC
*
70951 CAAGGCGAAA-CTGATAA
65 CAAGGCAAAATC-GATAA
* ** ** *
70968 AGCCAACATGTTAGAAGGGTTGACTTGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
1 AGCCAACATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGCC
*
71033 AGGGCAAAATCGATAA
66 AAGGCAAAATCGATAA
* * *
71049 AGCCAATC-TGTTAGAAAGGTTGACTAAGACGAAATTGATAAAGTCAACCAATTAAAAAGTTGGC
1 AGCCAA-CATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGC
* * ** * *
71113 GAGGGTGAAACCAATAA
65 CAAGGCAAAATCGATAA
*** * * * ** * *
71130 AGCCAATGGGTTAGAAGGGTTGA-TCACGG-TAAAACCGATAAAGTCAACTAATTAAAAGGTTGG
1 AGCCAACATGTTAGAAAGGTTGACT-AAGGCGAAAA-TAATAAAGTCAACCAATTAAAAAGTTGG
* *
71193 CCAAGGCGAAACCGATAA
64 CCAAGGCAAAATCGATAA
** * ** * * * * *
71211 AGCCAATGTGTTAGAATGGTTGACTTGGGC-AAAATCGATAAAGTCAACTAATTAATAGGTT-GT
1 AGCCAACATGTTAGAAAGGTTGACTAAGGCGAAAAT-AATAAAGTCAACCAATTAAAAAGTTGGC
*
71274 CAGGGCAAAATCGATAA
65 CAAGGCAAAATCGATAA
* * * * * * *** *
71291 AACCAATGA-GTTAGAAGGGTTGATTAGGGTGAAACCGATAAAGTCAACCAATTAAAAGGTTGGC
1 AGCCAA-CATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGC
** *
71355 CAAGGTGAAA-CCAGTAA
65 CAAGGCAAAATCGA-TAA
* *** * * * * * ** *
71372 AGCTAATGGGTTAGAACGGTAGACCACGAC-AAAACCGATAAAGTCAACCAATTAAAAGGTTGGC
1 AGCCAACATGTTAGAAAGGTTGACTAAGGCGAAAA-TAATAAAGTCAACCAATTAAAAAGTTGGC
*
71436 C-AGGTCAAAATCAATAA
65 CAAGG-CAAAATCGATAA
* * * * * ** * * *
71453 AGCCAAAAGGTTAGAAGGGTTGATTAGGGCGAAACCAATAAAGTTAACCAATTCAAAGGTTGGCC
1 AGCCAACATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGCC
* *
71518 AGGGCAAAA-CCATTAA
66 AAGGCAAAATCGA-TAA
*** * * * * * * * *
71534 AGCCAATGGGTTAGAAGGGTTAACCATGGCTAAATTGATAAAGTCAACCAATTAAAAGGTTGGCC
1 AGCCAACATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGCC
*
71599 -AGG-ATGAAA-CTAATAA
66 AAGGCA--AAATC-GATAA
* * * * * * *
71615 AACCAATAGGTTA-AAAGGGTTGACTAGGGCGAAACTAATAAAGTCAACCAATTAATAGGTT-G-
1 AGCCAACATGTTAGAAA-GGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGC
***
71677 TTTGGCCAAAATCGATAA
65 CAAGG-CAAAATCGATAA
* * * ** * * *
71695 AACCAATGA-GTTAGAAGGGTTGACTAAATC-AAAACCAATAAAGTCAACCAATTAGAAGGTTGG
1 AGCCAA-CATGTTAGAAAGGTTGACTAAGGCGAAAA-TAATAAAGTCAACCAATTAAAAAGTTGG
* *
71758 CCAAGGCCAAA-CTAGTAA
64 CCAAGGCAAAATCGA-TAA
* *
71776 AGCCAATAGGTTA-AAAGGGTTGACT-AGGACGAAA
1 AGCCAACATGTTAGAAA-GGTTGACTAAGG-CGAAA
71810 CCAGCAAAGC
Statistics
Matches: 726, Mismatches: 156, Indels: 81
0.75 0.16 0.08
Matches are distributed among these distances:
79 4 0.01
80 140 0.19
81 559 0.77
82 23 0.03
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (81 bp):
AGCCAACATGTTAGAAAGGTTGACTAAGGCGAAAATAATAAAGTCAACCAATTAAAAAGTTGGCC
AAGGCAAAATCGATAA
Found at i:71095 original size:162 final size:162
Alignment explanation
Indices: 70806--71863 Score: 931
Period size: 162 Copynumber: 6.5 Consensus size: 162
70796 AAACCATATG
* * * *** * * *
70806 AGCCAACAAGTTAGAAGGATTGACTAGGGCGAAATTGATAAAGCCAACTAATTAAAAAGTTGGCC
1 AGCCAATAGGTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
* * ** * * * *
70871 AAGGTAAAATCAATAAA-CCTAACATGTTAAAAAGGTTGACCAAGGCAAAAAT-AATGAAGTCAA
66 AAGGCAAAATCGATAAAGCC-AATGTGTTAGAAAGGTTGACCAAGAC-AAAATCGATAAAGTCAA
* * *
70934 CCAATTAAAAAGTTGACCAAGGCGAAACTGATAA
129 CCAATTAAAAGGTTGGCCAAGGCGAAACTAATAA
* * *
70968 AGCCAACATGTTAGAAGGGTTGACTTGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
1 AGCCAATAGGTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
* * * * *
71033 AGGGCAAAATCGATAAAGCCAATCTGTTAGAAAGGTTGACTAAGACGAAATTGATAAAGTCAACC
66 AAGGCAAAATCGATAAAGCCAATGTGTTAGAAAGGTTGACCAAGACAAAATCGATAAAGTCAACC
* * * * *
71098 AATTAAAAAGTTGGCGAGGGTGAAACCAATAA
131 AATTAAAAGGTTGGCCAAGGCGAAACTAATAA
* * ** * *
71130 AGCCAATGGGTTAGAAGGGTTGA-TCACGGTAAAACCGATAAAGTCAACTAATTAAAAGGTTGGC
1 AGCCAATAGGTTAGAAGGGTTGACT-AGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGC
* * * *** *
71194 CAAGGCGAAACCGATAAAGCCAATGTGTTAGAATGGTTGACTTGGGCAAAATCGATAAAGTCAAC
65 CAAGGCAAAATCGATAAAGCCAATGTGTTAGAAAGGTTGACCAAGACAAAATCGATAAAGTCAAC
* * * * * *
71259 TAATTAATAGGTT-GTCAGGGC-AAAATCGATAA
130 CAATTAAAAGGTTGGCCAAGGCGAAACT-AATAA
* * * *
71291 AACCAAT-GAGTTAGAAGGGTTGATTAGGGTGAAACCGATAAAGTCAACCAATTAAAAGGTTGGC
1 AGCCAATAG-GTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGC
** * * * * * * *
71355 CAAGGTGAAA-CCAGTAAAGCTAATGGGTTAGAACGGTAGACCACGACAAAACCGATAAAGTCAA
65 CAAGGCAAAATCGA-TAAAGCCAATGTGTTAGAAAGGTTGACCAAGACAAAATCGATAAAGTCAA
*
71419 CCAATTAAAAGGTTGGCC-AGGTC-AAAATCAATAA
129 CCAATTAAAAGGTTGGCCAAGG-CGAAACT-AATAA
* * * *
71453 AGCCAAAAGGTTAGAAGGGTTGATTAGGGCGAAACCAATAAAGTTAACCAATTCAAAGGTTGGCC
1 AGCCAATAGGTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
* * * * * * * * *
71518 AGGGCAAAA-CCATTAAAGCCAATGGGTTAGAAGGGTTAACCATGGCTAAATTGATAAAGTCAAC
66 AAGGCAAAATCGA-TAAAGCCAATGTGTTAGAAAGGTTGACCAAGACAAAATCGATAAAGTCAAC
*
71582 CAATTAAAAGGTTGGCC-AGGATGAAACTAATAA
130 CAATTAAAAGGTTGGCCAAGG-CGAAACTAATAA
* * * * *
71615 AACCAATAGGTTAAAAGGGTTGACTAGGGCGAAACTAATAAAGTCAACCAATTAATAGGTT-G-T
1 AGCCAATAGGTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
** * * * * * *
71678 TTGGCCAAAATCGATAAAACCAATGAGTTAGAAGGGTTGACTAA-ATCAAAACCAATAAAGTCAA
66 AAGG-CAAAATCGATAAAGCCAATGTGTTAGAAAGGTTGACCAAGA-CAAAATCGATAAAGTCAA
* * *
71742 CCAATTAGAAGGTTGGCCAAGGCCAAACTAGTAA
129 CCAATTAAAAGGTTGGCCAAGGCGAAACTAATAA
* * ** * * * * *
71776 AGCCAATAGGTTAAAAGGGTTGACTAGGACGAAACCAGCAAAGCCAACTACTTCAAAGATTGGCC
1 AGCCAATAGGTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
* **
71841 AAGGCGAAATTAAT-AAGCCAATG
66 AAGGCAAAATCGATAAAGCCAATG
71864 GGTAAAAAAA
Statistics
Matches: 739, Mismatches: 140, Indels: 35
0.81 0.15 0.04
Matches are distributed among these distances:
160 8 0.01
161 263 0.36
162 459 0.62
163 9 0.01
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (162 bp):
AGCCAATAGGTTAGAAGGGTTGACTAGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCC
AAGGCAAAATCGATAAAGCCAATGTGTTAGAAAGGTTGACCAAGACAAAATCGATAAAGTCAACC
AATTAAAAGGTTGGCCAAGGCGAAACTAATAA
Found at i:71250 original size:41 final size:40
Alignment explanation
Indices: 71032--71313 Score: 117
Period size: 41 Copynumber: 7.0 Consensus size: 40
71022 AAAGGTTGGC
** *
71032 CAGGGCAAAATCGATAAAGCCAATCTGTTAGAAAGGTTGA
1 CAGGGCAAAATCGATAAAGCCAATGAGTTAGAATGGTTGA
* * * * * ** * ** *
71072 CTAAGACGAAATTGATAAAGTCAACCAATTA-AAAAGTTGG
1 C-AGGGCAAAATCGATAAAGCCAATGAGTTAGAATGGTTGA
** * * * *
71112 CGAGGGTGAAACCAATAAAGCCAATGGGTTAGAAGGGTTGA
1 C-AGGGCAAAATCGATAAAGCCAATGAGTTAGAATGGTTGA
* * * * * * *
71153 TCACGGTAAAACCGATAAAGTCAACT-AATTA-AAAGGTTGGC
1 -CAGGGCAAAATCGATAAAGCCAA-TGAGTTAGAATGGTT-GA
* * * *
71194 CAAGGCGAAACCGATAAAGCCAATGTGTTAGAATGGTTGA
1 CAGGGCAAAATCGATAAAGCCAATGAGTTAGAATGGTTGA
* * * *
71234 CTTGGGCAAAATCGATAAAGTCAACT-AATT--AATAGGTTGT
1 C-AGGGCAAAATCGATAAAGCCAA-TGAGTTAGAAT-GGTTGA
* *
71274 CAGGGCAAAATCGATAAAACCAATGAGTTAGAAGGGTTGA
1 CAGGGCAAAATCGATAAAGCCAATGAGTTAGAATGGTTGA
71314 TTAGGGTGAA
Statistics
Matches: 174, Mismatches: 55, Indels: 26
0.68 0.22 0.10
Matches are distributed among these distances:
38 1 0.01
39 26 0.15
40 68 0.39
41 76 0.44
42 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (40 bp):
CAGGGCAAAATCGATAAAGCCAATGAGTTAGAATGGTTGA
Found at i:71615 original size:40 final size:40
Alignment explanation
Indices: 71409--71676 Score: 114
Period size: 41 Copynumber: 6.6 Consensus size: 40
71399 GACAAAACCG
* * *
71409 ATAAAGTCAACCAATTAAAAGGTTGGCCAGGTC-AAAATCA
1 ATAAAGTCAACCAATTAAAAGGTTGACCAGGACGAAACT-A
* * ** * *
71449 ATAAAGCCAA--AAGGTTAGAAGGGTTGATTAGGGCGAAACCA
1 ATAAAGTCAACCAA--TTA-AAAGGTTGACCAGGACGAAACTA
* * * * * *
71490 ATAAAGTTAACCAATTCAAAGGTTGGCCAGGGCAAAACCA
1 ATAAAGTCAACCAATTAAAAGGTTGACCAGGACGAAACTA
* * **** * * * * *
71530 TTAAAGCCAATGGGTTAGAAGGGTTAACCATGG-CTAAATTG
1 ATAAAGTCAACCAATTA-AAAGGTTGACCA-GGACGAAACTA
* *
71571 ATAAAGTCAACCAATTAAAAGGTTGGCCAGGATGAAACTA
1 ATAAAGTCAACCAATTAAAAGGTTGACCAGGACGAAACTA
** * * * *
71611 ATAAAACCAA-TAGGTTAAAAGGGTTGACTAGGGCGAAACTA
1 ATAAAGTCAACCA-ATTAAAA-GGTTGACCAGGACGAAACTA
*
71652 ATAAAGTCAACCAATTAATAGGTTG
1 ATAAAGTCAACCAATTAAAAGGTTG
71677 TTTGGCCAAA
Statistics
Matches: 159, Mismatches: 57, Indels: 24
0.66 0.24 0.10
Matches are distributed among these distances:
38 2 0.01
39 3 0.02
40 71 0.45
41 75 0.47
42 6 0.04
43 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (40 bp):
ATAAAGTCAACCAATTAAAAGGTTGACCAGGACGAAACTA
Found at i:71833 original size:323 final size:317
Alignment explanation
Indices: 70927--71845 Score: 922
Period size: 323 Copynumber: 2.8 Consensus size: 317
70917 AAAAATAATG
* * * * *
70927 AAGTCAACCAATTAAAAAGTTGACCAAGGCGAAACTGATAAAGCCAACATGTTAGAAGGGTTGAC
1 AAGTCAACCAATTAAAAGGTTGGCC-AGG-GAAACTGATAAAACCAATAGGTTAGAAGGGTTGAC
* ** * *
70992 TTGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAATCGATAAAGCCAATC
64 TAGGGCGAAACCAATAAAGTCAACCAATT-AAAGGTT-G-TTGGCCAAAATCGATAAAGCCAATG
* * ** * * * *
71057 TGTTAGAAAGGTTGACTAAGACGAAATTGATAAAGTCAACCAATTAAAAAGTTGGCGAGGGTGAA
126 AGTTAGAAAGGTTGACTAA-ACAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAAGGTCAA
* * *
71122 ACCAATAAAGCCAATGGGTTAGAAGGGTTGATCACGGTA--AAACC-GATAAAGTCAACTAATTA
190 ACTAATAAAGCCAATAGGTTAGAAGGGTTGAT-A-GG-ACGAAACCAG-TAAAGTCAACTAATTC
* * * * *
71184 AAAGGTTGGCCAAGGCGAAACCGATAAAGCCAATGTGTTAGAATGGTTGACTTGGGCAAAATCGA
251 AAAGGTTGGCCAAGGCAAAACCGATAAAGCCAATGGGTTAGAAGGGTTAACATGGGCAAAATCGA
71249 TA
316 TA
* * * *
71251 AAGTCAACTAATTAATAGGTT-GTCAGGGCAAAATCGATAAAACCAAT-GAGTTAGAAGGGTTGA
1 AAGTCAACCAATTAAAAGGTTGGCCAGGG-AAACT-GATAAAACCAATAG-GTTAGAAGGGTTGA
* * * * * * *
71314 TTAGGGTGAAACCGATAAAGTCAACCAATTAAAAG--GTTGGCCAAGGTGAAACCAGTAAAGCTA
63 CTAGGGCGAAACCAATAAAGTCAACCAATTAAAGGTTGTTGGCCAA----AATCGA-TAAAGCCA
* * * * *
71377 ATGGGTTAGAACGGTAGACCACGACAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCC-AGGT
123 ATGAGTTAGAAAGGTTGACTA-AACAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAAGGT
* * * * * *
71441 CAAAATCAATAAAGCCAAAAGGTTAGAAGGGTTGATTAGGGCGAAACCAATAAAGTTAACCAATT
187 CAAACT-AATAAAGCCAATAGGTTAGAAGGGTTGA-TAGGACGAAACCAGTAAAGTCAACTAATT
* *
71506 CAAAGGTTGGCCAGGGCAAAACC-ATTAAAGCCAATGGGTTAGAAGGGTTAACCAT-GGCTAAAT
250 CAAAGGTTGGCCAAGGCAAAACCGA-TAAAGCCAATGGGTTAGAAGGGTTAA-CATGGGCAAAAT
*
71569 TGATA
313 CGATA
* *
71574 AAGTCAACCAATTAAAAGGTTGGCCAGGATGAAACTAATAAAACCAATAGGTTAAAAGGGTTGAC
1 AAGTCAACCAATTAAAAGGTTGGCCAGG--GAAACTGATAAAACCAATAGGTTAGAAGGGTTGAC
* *
71639 TAGGGCGAAACTAATAAAGTCAACCAATTAATAGGTTGTTTGGCCAAAATCGATAAAACCAATGA
64 TAGGGCGAAACCAATAAAGTCAACCAATTAA-AGGTTG-TTGGCCAAAATCGATAAAGCCAATGA
* * * *
71704 GTTAGAAGGGTTGACTAAATCAAAACCAATAAAGTCAACCAATTAGAAGGTTGGCCAAGGCCAAA
127 GTTAGAAAGGTTGACTAAA-CAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAAGGTCAAA
* * * * *
71769 CTAGTAAAGCCAATAGGTTAAAAGGGTTGACTAGGACGAAACCAGCAAAGCCAACTACTTCAAAG
191 CTAATAAAGCCAATAGGTTAGAAGGGTTGA-TAGGACGAAACCAGTAAAGTCAACTAATTCAAAG
*
71834 ATTGGCCAAGGC
255 GTTGGCCAAGGC
71846 GAAATTAATA
Statistics
Matches: 482, Mismatches: 87, Indels: 53
0.77 0.14 0.09
Matches are distributed among these distances:
318 5 0.01
319 1 0.00
321 1 0.00
322 25 0.05
323 343 0.71
324 90 0.19
325 7 0.01
326 1 0.00
327 1 0.00
328 8 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (317 bp):
AAGTCAACCAATTAAAAGGTTGGCCAGGGAAACTGATAAAACCAATAGGTTAGAAGGGTTGACTA
GGGCGAAACCAATAAAGTCAACCAATTAAAGGTTGTTGGCCAAAATCGATAAAGCCAATGAGTTA
GAAAGGTTGACTAAACAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAAGGTCAAACTAAT
AAAGCCAATAGGTTAGAAGGGTTGATAGGACGAAACCAGTAAAGTCAACTAATTCAAAGGTTGGC
CAAGGCAAAACCGATAAAGCCAATGGGTTAGAAGGGTTAACATGGGCAAAATCGATA
Found at i:71841 original size:242 final size:243
Alignment explanation
Indices: 70845--71899 Score: 610
Period size: 242 Copynumber: 4.3 Consensus size: 243
70835 CGAAATTGAT
* * * * * *
70845 AAAGCCAACTAATTAAAA-AGTTGGCCAAGG-TAAAATCAATAAACCTAACATGTTAAAAA-GGT
1 AAAGCCAACCAATTAAAAGA-TTGGCCAAGGCGAAACT-AATAAACC-AATAGGTAAAAAAGGGT
* * * * * * * * *
70907 TGACCAA-GGCAAAAATAATGAAGTCAACCAATTAAAAAGTTGACCAAGGCGAAACT-GATAAAG
63 TGA-CAAGGGCGAAACTAATAAAGTCAACCAATTAAAAGGTTGGCC-AGGCCAAAATCAATAAAA
* * *** * * *
70970 CCAACATGTTAGAAGGGTTGACTTGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCCAG
126 CCAAAAGGTTAGAAGGGTTGACTAAAGCAAAACCAATAAAGTCAACCAATTCAAAGGTTGGCCAA
* ** * * * * ** *
71035 GGCAAAATC-GATAAAGCCAATCTGTTAGAAA-GGTTGACTAAGACGAAATTGAT
191 GGCAAAACCAG-TAAAGCCAATAGGTTA-AAAGGGTTAACCATGGCGAAACAGAC
* * * * * * * *
71088 AAAGTCAACCAATTAAAA-AGTTGGCGAGGGTGAAACCAATAAAGCCAATGGGT-TAGAAGGGTT
1 AAAGCCAACCAATTAAAAGA-TTGGCCAAGGCGAAACTAATAAA-CCAATAGGTAAAAAAGGGTT
* ** ** * * * * *
71151 GATC-ACGGTAAAACCGATAAAGTCAACTAATTAAAAGGTTGGCCAAGG-CGAAACCGATAAAGC
64 GA-CAAGGGCGAAACTAATAAAGTCAACCAATTAAAAGGTTGGCC-AGGCCAAAATCAATAAAAC
* * *** * * * *
71214 C-AATGTGTTAGAATGGTTGACTTGGGCAAAATCGATAAAGTCAACTAATT-AATAGGTT-GTCA
127 CAAAAG-GTTAGAAGGGTTGACTAAAGCAAAACCAATAAAGTCAACCAATTCAA-AGGTTGGCCA
* * * * * ** * * * *
71276 GGGCAAAATC-GATAAAACCAAT-GAGTTAGAAGGGTTGATTAGGGTGAAACCGAT
190 AGGCAAAACCAG-TAAAGCCAATAG-GTTAAAAGGGTTAACCATGGCGAAACAGAC
* * * * * * * * * * *
71330 AAAGTCAACCAATTAAAAGGTTGGCCAAGGTGAAACCAGTAAAGCTAATGGGT-TAGAACGGTAG
1 AAAGCCAACCAATTAAAAGATTGGCCAAGGCGAAACTAATAAA-CCAATAGGTAAAAAAGGGTTG
* * * * ** * *
71394 ACCACGACAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAGGTCAAAATCAATAAAGCCAA
65 ACAAGGGCGAAACTAATAAAGTCAACCAATTAAAAGGTTGGCCAGGCCAAAATCAATAAAACCAA
* ** * * *
71459 AAGGTTAGAAGGGTTGATTAGGGCGAAACCAATAAAGTTAACCAATTCAAAGGTTGGCCAGGGCA
130 AAGGTTAGAAGGGTTGACTAAAGCAAAACCAATAAAGTCAACCAATTCAAAGGTTGGCCAAGGCA
* * * * ** *
71524 AAACCATTAAAGCCAATGGGTTAGAAGGGTTAACCATGGCTAAATTGAT
195 AAACCAGTAAAGCCAATAGGTTAAAAGGGTTAACCATGGCGAAACAGAC
* * * *
71573 AAAGTCAACCAATTAAAAGGTTGGCC-AGGATGAAACTAATAAAACCAATAGGT-TAAAAGGGTT
1 AAAGCCAACCAATTAAAAGATTGGCCAAGG-CGAAACTAAT-AAACCAATAGGTAAAAAAGGGTT
* * *** *
71636 GACTAGGGCGAAACTAATAAAGTCAACCAATTAATAGGTT-GTTTGGCCAAAATCGATAAAACC-
64 GACAAGGGCGAAACTAATAAAGTCAACCAATTAAAAGGTTGGCCAGGCCAAAATCAATAAAACCA
* *
71699 AATGAGTTAGAAGGGTTGACTAAATCAAAACCAATAAAGTCAACCAATT-AGAAGGTTGGCCAAG
129 AAAG-GTTAGAAGGGTTGACTAAAGCAAAACCAATAAAGTCAACCAATTCA-AAGGTTGGCCAAG
* * * *
71763 GCCAAACTAGTAAAGCCAATAGGTTAAAAGGGTTGACTA-GGACGAAACCAG-C
192 GCAAAACCAGTAAAGCCAATAGGTTAAAAGGGTTAACCATGG-CGAAA-CAGAC
* * * * * *
71815 AAAGCCAACTACTTCAAAGATTGGCCAAGGCGAAATTAATAAGCCAATGGGTAAAAAAAGGGTTG
1 AAAGCCAACCAATTAAAAGATTGGCCAAGGCGAAACTAATAAACCAATAGGT-AAAAAAGGGTTG
71880 ACAAGGGCGAAACTAATAAA
65 ACAAGGGCGAAACTAATAAA
71900 ACCAATGAGT
Statistics
Matches: 659, Mismatches: 127, Indels: 52
0.79 0.15 0.06
Matches are distributed among these distances:
241 22 0.03
242 336 0.51
243 292 0.44
244 9 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (243 bp):
AAAGCCAACCAATTAAAAGATTGGCCAAGGCGAAACTAATAAACCAATAGGTAAAAAAGGGTTGA
CAAGGGCGAAACTAATAAAGTCAACCAATTAAAAGGTTGGCCAGGCCAAAATCAATAAAACCAAA
AGGTTAGAAGGGTTGACTAAAGCAAAACCAATAAAGTCAACCAATTCAAAGGTTGGCCAAGGCAA
AACCAGTAAAGCCAATAGGTTAAAAGGGTTAACCATGGCGAAACAGAC
Found at i:71841 original size:404 final size:404
Alignment explanation
Indices: 70927--71861 Score: 1112
Period size: 404 Copynumber: 2.3 Consensus size: 404
70917 AAAAATAATG
* * * *
70927 AAGTCAACCAATTAAAAAGTTGACCAAGGCGAAACT-GATAAAGCCAACATGTTAGAAGGGTTGA
1 AAGTCAACCAATTAAAAGGTTGGCCAAGGCGAAACTAG-TAAAGCCAATAGGTTAGAAGGGTTGA
* * * * *
70991 CTTGGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAATCGATAAAGCCAAT
65 CTAGGACGAAACCAGTAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAATCAATAAAGCCAAA
** *** * **
71056 CTGTTAGAAAGGTTGACTAAGACGAAATTGATAAAGTCAACCAATTAAAAAGTTGGCGAGGGTGA
130 AGGTTAGAAAGGTTGACTAAGACGAAACCAATAAAGTCAACCAATTAAAAAGTTGGCCAGGGCAA
* * *
71121 AACCAATAAAGCCAATGGGTTAGAAGGGTTGATCACGGTAAAACCGATAAAGTCAACTAATTAAA
195 AACCAATAAAGCCAATGGGTTAGAAGGGTTAACCACGGTAAAACCGATAAAGTCAACCAATTAAA
* * * * * *
71186 AGGTTGGCCAAGGCGAAACCGATAAAGCCAATGTGTTAGAATGGTTGACTTGGGCAAAATCGATA
260 AGGTTGGCCAAGGCGAAACCAATAAAACCAATGTGTTAAAAGGGTTGACTAGGGCAAAATCAATA
* * *
71251 AAGTCAACTAATTAATAGGTTGTCAGGGCAAAATCGATAAAACCAATGAGTTAGAAGGGTTGATT
325 AAGTCAACCAATTAATAGGTTGTCAGGCCAAAATCGATAAAACCAATGAGTTAGAAGGGTTGACT
** * *
71316 AGGGTGAAACCGATA
390 AGAATAAAACCAATA
* * * * * *
71331 AAGTCAACCAATTAAAAGGTTGGCCAAGGTGAAACCAGTAAAGCTAATGGGTTAGAACGGTAGAC
1 AAGTCAACCAATTAAAAGGTTGGCCAAGGCGAAACTAGTAAAGCCAATAGGTTAGAAGGGTTGAC
* * * *
71396 CACGACAAAACC-GATAAAGTCAACCAATTAAAAGGTTGGCCAGGTCAAAATCAATAAAGCCAAA
66 TAGGACGAAACCAG-TAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAATCAATAAAGCCAAA
* * * * * * *
71460 AGGTTAGAAGGGTTGATTAGGGCGAAACCAATAAAGTTAACCAATTCAAAGGTTGGCCAGGGCAA
130 AGGTTAGAAAGGTTGACTAAGACGAAACCAATAAAGTCAACCAATTAAAAAGTTGGCCAGGGCAA
* * **
71525 AACCATTAAAGCCAATGGGTTAGAAGGGTTAACCATGGCT-AAATTGATAAAGTCAACCAATTAA
195 AACCAATAAAGCCAATGGGTTAGAAGGGTTAACCACGG-TAAAACCGATAAAGTCAACCAATTAA
* * *
71589 AAGGTTGGCC-AGGATGAAACTAATAAAACCAATAG-GTTAAAAGGGTTGACTAGGGCGAAA-CT
259 AAGGTTGGCCAAGG-CGAAACCAATAAAACCAAT-GTGTTAAAAGGGTTGACTAGGGCAAAATC-
**
71651 AATAAAGTCAACCAATTAATAGGTTGTTTGGCCAAAATCGATAAAACCAATGAGTTAGAAGGGTT
321 AATAAAGTCAACCAATTAATAGGTTGTCAGGCCAAAATCGATAAAACCAATGAGTTAGAAGGGTT
71716 GACTA-AATCAAAACCAATA
386 GACTAGAAT-AAAACCAATA
* * *
71735 AAGTCAACCAATTAGAAGGTTGGCCAAGGCCAAACTAGTAAAGCCAATAGGTTAAAAGGGTTGAC
1 AAGTCAACCAATTAAAAGGTTGGCCAAGGCGAAACTAGTAAAGCCAATAGGTTAGAAGGGTTGAC
* * * * * * * * *
71800 TAGGACGAAACCAGCAAAGCCAACTACTTCAAAGATTGGCCAAGGCGAAATTAAT-AAGCCAA
66 TAGGACGAAACCAGTAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAATCAATAAAGCCAA
71862 TGGGTAAAAA
Statistics
Matches: 442, Mismatches: 81, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
403 12 0.03
404 426 0.96
405 4 0.01
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (404 bp):
AAGTCAACCAATTAAAAGGTTGGCCAAGGCGAAACTAGTAAAGCCAATAGGTTAGAAGGGTTGAC
TAGGACGAAACCAGTAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAATCAATAAAGCCAAAA
GGTTAGAAAGGTTGACTAAGACGAAACCAATAAAGTCAACCAATTAAAAAGTTGGCCAGGGCAAA
ACCAATAAAGCCAATGGGTTAGAAGGGTTAACCACGGTAAAACCGATAAAGTCAACCAATTAAAA
GGTTGGCCAAGGCGAAACCAATAAAACCAATGTGTTAAAAGGGTTGACTAGGGCAAAATCAATAA
AGTCAACCAATTAATAGGTTGTCAGGCCAAAATCGATAAAACCAATGAGTTAGAAGGGTTGACTA
GAATAAAACCAATA
Found at i:74123 original size:20 final size:20
Alignment explanation
Indices: 74100--74169 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
74090 ACCAATACCA
*
74100 ATGCAAATGTAAGTGAAAAG
1 ATGCAAATGCAAGTGAAAAG
* *
74120 ATGCAAATGCAAGT-ATCAAT
1 ATGCAAATGCAAGTGA-AAAG
*
74140 ATAGCAAATGCACA-TGAAATG
1 AT-GCAAATGCA-AGTGAAAAG
74161 ATGCAAATG
1 ATGCAAATG
74170 TAAATGCGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.03
20 24 0.60
21 13 0.32
22 2 0.05
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (20 bp):
ATGCAAATGCAAGTGAAAAG
Found at i:74669 original size:112 final size:113
Alignment explanation
Indices: 74473--74705 Score: 278
Period size: 112 Copynumber: 2.1 Consensus size: 113
74463 ATCTAGCAGG
* * * *
74473 TTTGATGTTGTTGGGCACAAAATTTTCAAAACTCATACGATAGGTACCCCATTTTCCTAGGCATG
1 TTTGATGTGGTTGGGCACAAAATTTTCAAAACCCATACGATAGATACCCCATTTTCCTAGGCACG
* * *
74538 AATGGATCAGATCAAATAAAATATGAATTT-TTCGAAAATCA-AACAAC
66 AATGGATCAAATCAAATAAAATATGAATTTCTTCAAAAATCAGAA-AAA
** *
74585 TTTGATGTGGTTGGGCTTAAAATTTTCAAAACCCATA-GA-AGACATACCCTATTTTCCTAGGCA
1 TTTGATGTGGTTGGGCACAAAATTTTCAAAACCCATACGATAG--ATACCCCATTTTCCTAGGCA
** *
74648 CGAATGGATCAAAAT-GTATAAAATATGAATTTCTTTAAAAATCAGAAAAA
64 CGAATGGATC-AAATCAAATAAAATATGAATTTCTTCAAAAATCAGAAAAA
74698 TTTGATGT
1 TTTGATGT
74706 TCTTCCAAGC
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
110 2 0.02
111 2 0.02
112 75 0.73
113 22 0.21
114 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (113 bp):
TTTGATGTGGTTGGGCACAAAATTTTCAAAACCCATACGATAGATACCCCATTTTCCTAGGCACG
AATGGATCAAATCAAATAAAATATGAATTTCTTCAAAAATCAGAAAAA
Found at i:75705 original size:52 final size:52
Alignment explanation
Indices: 75612--75742 Score: 133
Period size: 52 Copynumber: 2.5 Consensus size: 52
75602 AAATAACAGG
* ** * *
75612 GTTGGAGTATCCCCGATTGT-AGTAAA-TCGATGCTTTAGAAATAAGGCCGGG
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGATGCTTTAGAAATAAAACCAGA
* * * *
75663 GTTTGGAGTATCCTCGATTGTGAGAAATTAG-TGTTTTGGAAATAAAATCAGA
1 G-TTGGAGTATCCCCGATTGTGAGAAATTAGATGCTTTAGAAATAAAACCAGA
*
75715 GTTGGAGTATCCCCGATTGTGAAAAATT
1 GTTGGAGTATCCCCGATTGTGAGAAATT
75743 GGTATTTTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
51 26 0.39
52 36 0.55
53 4 0.06
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGATGCTTTAGAAATAAAACCAGA
Found at i:75732 original size:51 final size:51
Alignment explanation
Indices: 75665--75777 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
75655 AGGCCGGGGT
* * * **
75665 TTGGAGTATCCTCGATTGTGAGAAATTAGTGTTTTGGAAATAAAATCAGAG
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATCAGAG
* * *
75716 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAAAAATAAAATCGGGG
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATCAGAG
*
75767 TCGGAGTATCC
1 TTGGAGTATCC
75778 TCTCGGAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATCAGAG
Found at i:75793 original size:28 final size:28
Alignment explanation
Indices: 75762--75830 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
75752 AAAATAAAAT
* **
75762 CGGGGTCGGAGTATCCTCTCGGAAATAA
1 CGGGGTTGGAGTATCCTCGAGGAAATAA
* * *
75790 CGGGATTGGAGTATCCTCGATGACATAA
1 CGGGGTTGGAGTATCCTCGAGGAAATAA
75818 CGGGGTTGGAGTA
1 CGGGGTTGGAGTA
75831 CCCTTGATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGAGGAAATAA
Found at i:75973 original size:107 final size:107
Alignment explanation
Indices: 75734--75974 Score: 281
Period size: 107 Copynumber: 2.3 Consensus size: 107
75724 TCCCCGATTG
* * * * *
75734 TGAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGGAGTATCCTCTCGGAAATAACGGGATTGG
1 TGAAAAATTGGTATTTTAGAAATAAAACCAGGGTCAGAGTATCCCCTCGGAAATAACGGGATTGG
* * *
75799 AGTATCCTCGATGACATAACGGGGTTGGAGTACCCTTGATTA
66 AGTATCCTCGATGAAATAACGGGGTTAGAGTACCCTTAATTA
*** * * *
75841 TGAAAAATCAATATTTTAGATATAAAGCCAGGGTTAGAGTATCCCCTCGGAAATAACGAGG-TTG
1 TGAAAAATTGGTATTTTAGAAATAAAACCAGGGTCAGAGTATCCCCTCGGAAATAACG-GGATTG
*
75905 GAGTAT-CTCCGATGAAATAACGGGGTTAGAGTA-TCTTCAATTA
65 GAGTATCCT-CGATGAAATAACGGGGTTAGAGTACCCTT-AATTA
* *
75948 TGAAAAATTGGTGTTTTGGAAATAAAA
1 TGAAAAATTGGTATTTTAGAAATAAAA
75975 TCGGAGTTGG
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
106 5 0.05
107 102 0.94
108 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (107 bp):
TGAAAAATTGGTATTTTAGAAATAAAACCAGGGTCAGAGTATCCCCTCGGAAATAACGGGATTGG
AGTATCCTCGATGAAATAACGGGGTTAGAGTACCCTTAATTA
Found at i:79109 original size:53 final size:53
Alignment explanation
Indices: 79029--79233 Score: 342
Period size: 53 Copynumber: 3.9 Consensus size: 53
79019 CCGAAATATG
*
79029 AAAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
79082 AAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
79135 AAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
79188 -AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACAT
1 AAAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACAT
79234 TTAAGTGATG
Statistics
Matches: 146, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
51 2 0.01
52 40 0.27
53 104 0.71
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (53 bp):
AAAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:79308 original size:32 final size:32
Alignment explanation
Indices: 79272--79334 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
79262 AGTAGCTTAA
79272 ATTGTATCGATACAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAATATGTATCGATAC
* **
79304 ATTGTATCGATACAACACTTATGTATCGATA
1 ATTGTATCGATACAAAAAATATGTATCGATA
79335 ACAACTCGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (32 bp):
ATTGTATCGATACAAAAAATATGTATCGATAC
Found at i:79311 original size:13 final size:13
Alignment explanation
Indices: 79293--79317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79283 ACAAAAAATA
79293 TGTATCGATACAT
1 TGTATCGATACAT
79306 TGTATCGATACA
1 TGTATCGATACA
79318 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80225 original size:50 final size:53
Alignment explanation
Indices: 80078--80226 Score: 144
Period size: 50 Copynumber: 2.8 Consensus size: 53
80068 GAAAAGTGAT
* * * * * *
80078 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGACTT-AAGATGAGAA
* * * * *
80132 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACA-TGAACTTAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAACTATATTGGACTTAAGATGAGAA
*
80183 AAAGGTGCCAATATGCTGATTCAAGGCC-TCTATATTGGACTTAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGACTTAA
80227 AGGTGCCAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
49 4 0.05
50 29 0.38
51 6 0.08
52 1 0.01
53 5 0.06
54 9 0.12
55 23 0.30
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (53 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGACTTAAGATGAGAA
Found at i:80314 original size:28 final size:28
Alignment explanation
Indices: 80282--80720 Score: 285
Period size: 28 Copynumber: 15.1 Consensus size: 28
80272 GATGGAAAAT
*
80282 GTGCCACCGACTTGTGGGCTTTTAAAGG
1 GTGCCACTGACTTGTGGGCTTTTAAAGG
* *
80310 GTGCCACTGATTTGTGGGC-TTT-GAGG
1 GTGCCACTGACTTGTGGGCTTTTAAAGG
* *
80336 TTGCCACTGACTTGTGGGTTTTTAAAGG
1 GTGCCACTGACTTGTGGGCTTTTAAAGG
* * **
80364 TTGCCACTGACTTGTGGGCTTTGAAAAAT
1 GTGCCACTGACTTGTGGGCTTT-TAAAGG
*
80393 ATGCCACTGACTTGT-GGCTTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTT--AAAGG
*
80422 GTGCCACTAACTTGTGGGCTTTTAAAGG
1 GTGCCACTGACTTGTGGGCTTTTAAAGG
* **
80450 TTGCCACTGACTTGTGGGCTTTTGAAAACT
1 GTGCCACTGACTTGTGGGCTTTT--AAAGG
*
80480 ATGCCACTGACTTGTGGGCTTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTT--AAAGG
* **
80510 GTGCCACTAACTTGT-GGCTTACAAAAGAAAAAG
1 GTGCCACTGACTTGTGGGCTT-TTAAAG-----G
* * * * *
80543 AGTGCCACGGAGTTGTGGACTTTGGAAAAG
1 -GTGCCACTGACTTGTGGGCTTT-TAAAGG
* * **
80573 ATGCCACCGACTTGTGGGCTTCGGAAAAGG
1 GTGCCACTGACTTGTGGGCTT--TTAAAGG
* * *
80603 GTGCCACTAATTTGTGGGC-TTTGAAGG
1 GTGCCACTGACTTGTGGGCTTTTAAAGG
* **
80630 TTGCCACTGACTTGTTGGGCTTTTGAAAAAA
1 GTGCCACTGACTTG-TGGGCTTTT--AAAGG
* * * **
80661 ATGCCACTAACTTGTGGGCTTTGAAGAAT
1 GTGCCACTGACTTGTGGGCTTTTAA-AGG
* * *
80690 ATGCCACTGACTTGTGGACTTTTGAAGG
1 GTGCCACTGACTTGTGGGCTTTTAAAGG
80718 GTG
1 GTG
80721 ATGAATGTCT
Statistics
Matches: 321, Mismatches: 66, Indels: 48
0.74 0.15 0.11
Matches are distributed among these distances:
26 19 0.06
27 21 0.07
28 87 0.27
29 82 0.26
30 78 0.24
31 14 0.04
33 1 0.00
34 12 0.04
35 7 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTTAAAGG
Found at i:80407 original size:29 final size:29
Alignment explanation
Indices: 80283--80711 Score: 326
Period size: 29 Copynumber: 14.7 Consensus size: 29
80273 ATGGAAAATG
* * **
80283 TGCCACCGACTTGTGGGCTTT-TAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGTA
* *
80311 TGCCACTGATTTGTGGGCTTTG--AGGT-
1 TGCCACTGACTTGTGGGCTTTGAAAAGTA
* * *
80337 TGCCACTGACTTGTGGGTTTTTAAAGGT-
1 TGCCACTGACTTGTGGGCTTTGAAAAGTA
*
80365 TGCCACTGACTTGTGGGCTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTGAAAAGTA
**
80394 TGCCACTGACTTGT-GGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGC-TTTGAAAAGTA
* * *
80423 TGCCACTAACTTGTGGGCTTTTAAAGGT-
1 TGCCACTGACTTGTGGGCTTTGAAAAGTA
*
80451 TGCCACTGACTTGTGGGCTTTTGAAAACTA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGTA
**
80481 TGCCACTGACTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGC-TTTGAAAAGTA
* *
80511 TGCCACTAACTTGT-GGCTTACAAAAGAAAAAG-A
1 TGCCACTGACTTGTGGGCTT-----TG-AAAAGTA
* * *
80544 GTGCCACGGAGTTGTGGACTTTGGAAAAG-A
1 -TGCCACTGACTTGTGGGCTTT-GAAAAGTA
* * **
80574 TGCCACCGACTTGTGGGCTTCGGAAAAGGG
1 TGCCACTGACTTGTGGGCTT-TGAAAAGTA
* * *
80604 TGCCACTAATTTGTGGGCTTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTGAAAAGTA
**
80631 TGCCACTGACTTGTTGGGCTTTTGAAAAAAA
1 TGCCACTGACTTG-TGGGC-TTTGAAAAGTA
*
80662 TGCCACTAACTTGTGGGCTTTGAAGAA-TA
1 TGCCACTGACTTGTGGGCTTTGAA-AAGTA
*
80691 TGCCACTGACTTGTGGACTTT
1 TGCCACTGACTTGTGGGCTTT
80712 TGAAGGGTGA
Statistics
Matches: 324, Mismatches: 53, Indels: 47
0.76 0.12 0.11
Matches are distributed among these distances:
26 19 0.06
27 13 0.04
28 77 0.24
29 106 0.33
30 75 0.23
31 13 0.04
33 1 0.00
34 16 0.05
35 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGTA
Found at i:80435 original size:58 final size:58
Alignment explanation
Indices: 80277--80715 Score: 376
Period size: 58 Copynumber: 7.5 Consensus size: 58
80267 TTAAAGATGG
* *
80277 AAAATGTGCCACCGACTTGTGGGCTTTT--AAAGGGTGCCACTGATTTGTGGGCTTTG-
1 AAAAT-TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
** * *
80333 -AGGTTGCCACTGACTTGTGGG-TTTT-TAAAGGTTGCCACTGACTTGTGGGCTTTGA
1 AAAATTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
80388 AAAATATGCCACTGACTTGT-GGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTA
1 AAAAT-TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
** ***
80446 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAACTATGCCACTGACTTGTGGGCTTTTGA
1 AAAATTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGC-TTTGA
** * ** * * * *
80505 AAAGGGTGCCACTAACTTGT-GGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTGGA
1 AAA-ATTGCCACTGACTTGTGGGCTT----TTG-AAAAGGGTGCCACTGACTTGTGGGCTTT-GA
* ** * *
80569 AAAGA-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTAATTTGTGGGCTTTG-
1 AAA-ATTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
** *** *
80626 AAGGTTGCCACTGACTTGTTGGGCTTTTGAAAAAAATGCCACTAACTTGTGGGCTTTGA
1 AAAATTGCCACTGACTTG-TGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
* *
80685 AGAATATGCCACTGACTTGTGGACTTTTGAA
1 AAAAT-TGCCACTGACTTGTGGGCTTTTGAA
80716 GGGTGATGAA
Statistics
Matches: 311, Mismatches: 52, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
53 4 0.01
54 42 0.14
55 2 0.01
56 4 0.01
57 46 0.15
58 92 0.30
59 47 0.15
60 28 0.09
63 16 0.05
64 30 0.10
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (58 bp):
AAAATTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGA
Found at i:80637 original size:27 final size:27
Alignment explanation
Indices: 80572--80717 Score: 94
Period size: 30 Copynumber: 5.0 Consensus size: 27
80562 CTTTGGAAAA
** *
80572 GATGCCACCGACTTGTGGGCTTCGGAAAAG
1 GATGCCACTAACTTGTGGGCTT-TG--AAG
* *
80602 GGTGCCACTAATTTGTGGGCTTTGAAG
1 GATGCCACTAACTTGTGGGCTTTGAAG
* * *
80629 GTTGCCACTGACTTGTTGGGCTTTTGAAAAA
1 GATGCCACTAACTTG-TGGGC-TTTG--AAG
*
80660 AATGCCACTAACTTGTGGGCTTTGAAG
1 GATGCCACTAACTTGTGGGCTTTGAAG
* * *
80687 AATATGCCACTGACTTGTGGACTTTTGAAG
1 --GATGCCACTAACTTGTGGGC-TTTGAAG
80717 G
1 G
80718 GTGATGAATG
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
27 17 0.18
28 5 0.05
29 26 0.28
30 30 0.33
31 14 0.15
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (27 bp):
GATGCCACTAACTTGTGGGCTTTGAAG
Found at i:80706 original size:180 final size:180
Alignment explanation
Indices: 80365--80706 Score: 492
Period size: 180 Copynumber: 1.9 Consensus size: 180
80355 TTTTAAAGGT
* * * * **
80365 TGCCACTGACTTGTGGGCTTTGAAAAATATGCCACTGACTTGTGGCTTTTGAAAAGGGTGCCACT
1 TGCCACGGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGCTTCGGAAAAGGGTGCCACT
** *
80430 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAACTATGCCACTGACTTGT
66 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTAACTTGT
*
80495 GGGCTTTTGAAAAGGGTGCCACTAACTTGTGGCTTACAAAAGAAAAAGAG
131 GGGCTTTTGAAAAGGATGCCACTAACTTGTGGCTTACAAAAGAAAAAGAG
* *
80545 TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACGGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGT-GGCTTCGGAAAAGGGTGCCAC
* *
80610 TAATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTTGGGCTTTTGAAAAAAATGCCACTAACTT
65 TAACTTGTGGGCTTTTAAAGGTTGCCACTGACTTG-TGGGCTTTTGAAAAAAATGCCACTAACTT
* *
80674 GTGGGC-TTTGAAGAA-TATGCCACTGACTTGTGG
129 GTGGGCTTTTGAA-AAGGATGCCACTAACTTGTGG
80707 ACTTTTGAAG
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
180 79 0.55
181 64 0.45
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (180 bp):
TGCCACGGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGCTTCGGAAAAGGGTGCCACT
AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTAACTTGT
GGGCTTTTGAAAAGGATGCCACTAACTTGTGGCTTACAAAAGAAAAAGAG
Found at i:82158 original size:1 final size:1
Alignment explanation
Indices: 82154--82263 Score: 85
Period size: 1 Copynumber: 110.0 Consensus size: 1
82144 CCGGACCCCC
* * * * * * * * **
82154 TTTTTTTGTTTTTGTTGTTTTTTTATTGTTTTTGTTTTTTTTTTTGTTTTTTTTTTGTTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * *
82219 TTTTTTTCGTTTTTTTTGTTTTGTTTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
82264 GGAGGACGCT
Statistics
Matches: 81, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:82171 original size:9 final size:8
Alignment explanation
Indices: 82154--82263 Score: 111
Period size: 8 Copynumber: 13.8 Consensus size: 8
82144 CCGGACCCCC
82154 TTTTTTTG
1 TTTTTTTG
82162 TTTTTGTTG
1 TTTTT-TTG
*
82171 TTTTTTTA
1 TTTTTTTG
82179 TTGTTTTTG
1 TT-TTTTTG
82188 TTTTTTT-
1 TTTTTTTG
82195 TTTTGTTT-
1 TTTT-TTTG
82203 TTTTTTTG
1 TTTTTTTG
**
82211 TTTTTTCA
1 TTTTTTTG
82219 TTTTTTTCG
1 TTTTTTT-G
82228 -TTTTTT-
1 TTTTTTTG
*
82234 TTGTTTTG
1 TTTTTTTG
*
82242 TTTTTTTT
1 TTTTTTTG
82250 TTTTTTTG
1 TTTTTTTG
82258 TTTTTT
1 TTTTTT
82264 GGAGGACGCT
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
7 12 0.14
8 58 0.68
9 15 0.18
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Found at i:82212 original size:40 final size:41
Alignment explanation
Indices: 82154--82256 Score: 135
Period size: 40 Copynumber: 2.6 Consensus size: 41
82144 CCGGACCCCC
* *
82154 TTTTTTTG--TTTTTGTTGTTTTTTTATTGTTTTT-G-TTTT
1 TTTTTTTGTTTTTTTTTTGTTTTTTCATT-TTTTTCGTTTTT
82192 TTTTTTTGTTTTTTTTTTGTTTTTTCATTTTTTTCGTTTTT
1 TTTTTTTGTTTTTTTTTTGTTTTTTCATTTTTTTCGTTTTT
82233 TTTGTTTTGTTTTTTTTTT-TTTTT
1 TTT-TTTTGTTTTTTTTTTGTTTTT
82257 GTTTTTTGGA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
38 8 0.14
39 5 0.09
40 18 0.31
41 12 0.21
42 15 0.26
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (41 bp):
TTTTTTTGTTTTTTTTTTGTTTTTTCATTTTTTTCGTTTTT
Found at i:82215 original size:49 final size:47
Alignment explanation
Indices: 82154--82263 Score: 141
Period size: 49 Copynumber: 2.3 Consensus size: 47
82144 CCGGACCCCC
** *
82154 TTTTTTTGTTTTTGTTGTTTTTTT-ATTGTTTTTGTTTTTTTTTTTGTTT
1 TTTTTTTGTTTTT-TCATTTTTTTCATTGTTTTTG-TTTTGTTTTT-TTT
* *
82203 TTTTTTTGTTTTTTCATTTTTTTCGTTTTTTTTGTTTTGTTTTTTTT
1 TTTTTTTGTTTTTTCATTTTTTTCATTGTTTTTGTTTTGTTTTTTTT
82250 TTTTTTTGTTTTTT
1 TTTTTTTGTTTTTT
82264 GGAGGACGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 17 0.31
48 17 0.31
49 21 0.38
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (47 bp):
TTTTTTTGTTTTTTCATTTTTTTCATTGTTTTTGTTTTGTTTTTTTT
Found at i:82263 original size:40 final size:36
Alignment explanation
Indices: 82154--82263 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 36
82144 CCGGACCCCC
* *
82154 TTTTTTTGTTTTTGTTGTTTTTTTATTGTTTTTGTTTT
1 TTTTTTTGTTTTT-TT-TTTTTTTTTTTTTTTTGTTTT
82192 TTTTTTTGTTTTTTTTTTGTTTTTTCATTTTTTTCGTTTTT
1 TTTTTTTGTTTTTTTTTT-TTTTTT--TTTTTTT-G-TTTT
*
82233 TTTGTTTTGTTTTTTTTTTTTTTTGTTTTTT
1 TTT-TTTTGTTTTTTTTTTTTTTTTTTTTTT
82264 GGAGGACGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
36 3 0.05
37 7 0.11
38 13 0.21
39 12 0.19
40 1 0.02
41 12 0.19
42 15 0.24
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (36 bp):
TTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTGTTTT
Done.