Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 171 of 190
Found at i:49895168 original size:25 final size:25
Alignment explanation
Indices: 49895086--49895220 Score: 133
Period size: 25 Copynumber: 5.6 Consensus size: 25
49895076 TTGTTATGCA
*
49895086 CTAATGAA-CAGAGAGCACTAAAGTG
1 CTAAT-AATCAGAGAGCACTAACGTG
*
49895111 CT-AT-A-CAGAGAGCAC-ATATGTG
1 CTAATAATCAGAGAGCACTA-ACGTG
* *
49895133 CT-A-AA-CAGAGAGTACTGACGTG
1 CTAATAATCAGAGAGCACTAACGTG
*
49895155 CTAGTAATCAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTAACGTG
* *
49895180 CTAATAATCAGATAGCACCAACGTG
1 CTAATAATCAGAGAGCACTAACGTG
49895205 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
49895221 GCGCTAAAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
22 34 0.37
24 4 0.04
25 54 0.58
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAACGTG
Found at i:49896165 original size:3 final size:3
Alignment explanation
Indices: 49896157--49896194 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
49896147 TGTTATATAT
49896157 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATTA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
49896195 CTTATTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.12
3 25 0.78
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:49896171 original size:9 final size:8
Alignment explanation
Indices: 49896151--49896194 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
49896141 TCTGTTTGTT
49896151 ATATATATA
1 ATATA-ATA
49896160 ATAATAATA
1 AT-ATAATA
49896169 ATAATAATA
1 AT-ATAATA
49896178 ATATAATTA
1 ATATAA-TA
49896187 ATATAATA
1 ATATAATA
49896195 CTTATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 6 0.18
9 24 0.73
10 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:49898970 original size:23 final size:23
Alignment explanation
Indices: 49898944--49899039 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
49898934 ATAAGTGCCA
49898944 CACTAATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* * * * *
49898967 CACTGATAAGTAACTGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
49898990 CACTGAA-ATGTAGCCGAAGCTAC
1 CACT-AATATGTAGCCGAAGCTAC
* *
49899013 CACTAATGTGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
49899036 CACT
1 CACT
49899040 GATCAATAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
22 2 0.03
23 56 0.95
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:49899032 original size:46 final size:46
Alignment explanation
Indices: 49898951--49899041 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
49898941 CCACACTAAT
* *
49898951 ATGTAGCCGAAGCTACCACTGATAAGTAACTGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTAATAAGTAACCGTAGCTACCACTGAA
** *
49898997 ATGTAGCCGAAGCTACCACTAATGTGTAGCCGTAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTAATAAGTAACCGTAGCTACCACTGA
49899042 TCAATAACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTAATAAGTAACCGTAGCTACCACTGAA
Found at i:49902023 original size:38 final size:38
Alignment explanation
Indices: 49901974--49902048 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
49901964 AAACACAAAC
**
49901974 TTGGCACATGAAGTGCATACTGGTGCATAAGCGCATAT
1 TTGGCACATGAAGTGCATACTGGCACATAAGCGCATAT
*
49902012 TTGGCACATGAAGTGCATACTGGCACATAAGCTCATA
1 TTGGCACATGAAGTGCATACTGGCACATAAGCGCATA
49902049 ATATTGTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (38 bp):
TTGGCACATGAAGTGCATACTGGCACATAAGCGCATAT
Found at i:49902037 original size:19 final size:19
Alignment explanation
Indices: 49901975--49902039 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
49901965 AACACAAACT
49901975 TGGCACATGAAGTGCATAC
1 TGGCACATGAAGTGCATAC
** * *
49901994 TGGTGCAT-AAGCGCATATT
1 TGGCACATGAAGTGCATA-C
49902013 TGGCACATGAAGTGCATAC
1 TGGCACATGAAGTGCATAC
49902032 TGGCACAT
1 TGGCACAT
49902040 AAGCTCATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 8 0.22
19 20 0.56
20 8 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (19 bp):
TGGCACATGAAGTGCATAC
Found at i:49902831 original size:5 final size:5
Alignment explanation
Indices: 49902788--49902812 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49902778 AACAAAGAGT
49902788 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
49902813 GATATAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:49903706 original size:23 final size:22
Alignment explanation
Indices: 49903663--49903720 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
49903653 AAAGGGTATC
* *
49903663 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
49903684 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
49903707 TGCATATCATATCT
1 TACAAATCATATCT
49903721 AACATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:49908453 original size:11 final size:11
Alignment explanation
Indices: 49908437--49908468 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
49908427 CATTATATAG
49908437 AAAAAAATAAT
1 AAAAAAATAAT
49908448 AAAAAAATAAT
1 AAAAAAATAAT
*
49908459 TAAAAAATAA
1 AAAAAAATAA
49908469 GTAATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:49908718 original size:24 final size:24
Alignment explanation
Indices: 49908691--49908739 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
49908681 ATCATACGTG
*
49908691 ATAAA-TTCAAAATATTAATATATA
1 ATAAATTTAAAAATATTAATA-ATA
49908715 ATAAATTTAAAAATATTAATAATA
1 ATAAATTTAAAAATATTAATAATA
49908739 A
1 A
49908740 ATTTGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATTTAAAAATATTAATAATA
Found at i:49908740 original size:45 final size:45
Alignment explanation
Indices: 49908691--49908844 Score: 143
Period size: 46 Copynumber: 3.4 Consensus size: 45
49908681 ATCATACGTG
*
49908691 ATAAATTCAAAATATTAATATATAATAAATTTAAA-AATATTAATA
1 ATAAATTTAAAATA-TAATATATAATAAATTTAAATAATATTAATA
* * * *
49908736 ATAAATTTGAAATA-AATATACATGATAAATTTAAATAATGTTAATG
1 ATAAATTTAAAATATAATAT--ATAATAAATTTAAATAATATTAATA
* * * * *
49908782 ATGAGTTTAAAATAATAACATATTAA-AAATTAAAATAATATTGATA
1 ATAAATTTAAAAT-ATAATATA-TAATAAATTTAAATAATATTAATA
49908828 ATAAATTTAAAAATATA
1 ATAAATTT-AAAATATA
49908845 TTAAGCTTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.06
45 25 0.29
46 44 0.51
47 8 0.09
48 4 0.05
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (45 bp):
ATAAATTTAAAATATAATATATAATAAATTTAAATAATATTAATA
Found at i:49908752 original size:24 final size:23
Alignment explanation
Indices: 49908712--49908773 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
49908702 ATATTAATAT
49908712 ATAATAAATTT-AA-AAATATTA-
1 ATAATAAATTTAAATAAATA-TAC
49908733 ATAATAAATTTGAAATAAATATAC
1 ATAATAAATTT-AAATAAATATAC
*
49908757 ATGATAAATTTAAATAA
1 ATAATAAATTTAAATAA
49908774 TGTTAATGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 11 0.31
23 10 0.28
24 15 0.42
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (23 bp):
ATAATAAATTTAAATAAATATAC
Found at i:49908837 original size:23 final size:23
Alignment explanation
Indices: 49908691--49908848 Score: 105
Period size: 23 Copynumber: 6.9 Consensus size: 23
49908681 ATCATACGTG
* * *
49908691 ATAAATTCAAAATATTAATATATA
1 ATAAATTTAAAATAATATTA-ATA
49908715 ATAAATTT-AAA-AATATTAATA
1 ATAAATTTAAAATAATATTAATA
* *
49908736 ATAAATTTGAAATAA-ATATACATG
1 ATAAATTTAAAATAATAT-TA-ATA
* *
49908760 ATAAATTT-AAATAATGTTAATG
1 ATAAATTTAAAATAATATTAATA
* *
49908782 ATGAGTTTAAAATAATA--ACATA
1 ATAAATTTAAAATAATATTA-ATA
* * *
49908804 TTAAAAATTAAAATAATATTGATA
1 AT-AAATTTAAAATAATATTAATA
49908828 ATAAATTTAAAA-ATATATTAA
1 ATAAATTTAAAATA-ATATTAA
49908849 GCTTGAACAT
Statistics
Matches: 106, Mismatches: 17, Indels: 23
0.73 0.12 0.16
Matches are distributed among these distances:
21 12 0.11
22 23 0.22
23 49 0.46
24 22 0.21
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (23 bp):
ATAAATTTAAAATAATATTAATA
Found at i:49915465 original size:42 final size:42
Alignment explanation
Indices: 49915419--49915530 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
49915409 TGCTAAACAG
* ** * **
49915419 AAACCCATAAAGGTTGGACAGAAGCTCATAGGAGCTGAACGA
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAAAGCTGAACGA
* * *
49915461 AAACCCATACGGGTTAAACTGAAGCTCAAAAAAGCTGAACGG
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAAAGCTGAACGA
* *
49915503 AAACCCATAAGGGTTAAACTGAAACTCA
1 AAACCCATAAGGGTTAAACAGAAGCTCA
49915531 TATGAGTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (42 bp):
AAACCCATAAGGGTTAAACAGAAGCTCAAAAAAGCTGAACGA
Found at i:49915532 original size:21 final size:21
Alignment explanation
Indices: 49915461--49915541 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 21
49915451 AGCTGAACGA
* *
49915461 AAACCCATACGGGTTAAACTG
1 AAACCCATAAGAGTTAAACTG
* * * * * * *
49915482 AAGCTCAAAAAAGCTGAACGG
1 AAACCCATAAGAGTTAAACTG
*
49915503 AAACCCATAAGGGTTAAACTG
1 AAACCCATAAGAGTTAAACTG
* *
49915524 AAACTCATATGAGTTAAA
1 AAACCCATAAGAGTTAAA
49915542 TGGAGCTCAT
Statistics
Matches: 40, Mismatches: 20, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
AAACCCATAAGAGTTAAACTG
Found at i:49919070 original size:11 final size:11
Alignment explanation
Indices: 49919056--49919099 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
49919046 AGATAAATAT
49919056 TATTTTATTAA
1 TATTTTATTAA
*
49919067 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
49919080 TATTTTATTAT
1 TATTTTATTAA
49919091 TATTTTATT
1 TATTTTATT
49919100 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:49922585 original size:23 final size:23
Alignment explanation
Indices: 49922558--49922679 Score: 172
Period size: 23 Copynumber: 5.3 Consensus size: 23
49922548 AGTGTTATTG
*
49922558 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
49922581 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
49922604 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
49922627 TTTAGTGGTAGCTTCGGCAACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
49922650 AACAGTTGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
49922673 ATCAGTG
1 ATCAGTG
49922680 TTGCACTTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 84 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:49922613 original size:46 final size:46
Alignment explanation
Indices: 49922560--49922679 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 46
49922550 TGTTATTGAT
* *
49922560 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCAACATAA
*
49922606 CAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTTCGGCAACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCAACATAA
* *
49922652 CAGTTGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
49922680 TTGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCAACATAA
Found at i:49930035 original size:23 final size:23
Alignment explanation
Indices: 49930008--49930106 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
49929998 AGTGTTATTG
*
49930008 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
49930031 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
49930054 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
49930077 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
49930100 ATCAGTG
1 ATCAGTG
49930107 TTGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:49931367 original size:21 final size:21
Alignment explanation
Indices: 49931343--49931463 Score: 98
Period size: 21 Copynumber: 5.8 Consensus size: 21
49931333 AGTTAACTCA
*
49931343 TATGAGTTTCCGTTTAACCCC
1 TATGAGTTTCCGTTTAACCCT
* * *
49931364 TATGAGTTTCCATTCAACTCT
1 TATGAGTTTCCGTTTAACCCT
* * *
49931385 TTTGAGCTTCAGTTTAACCCT
1 TATGAGTTTCCGTTTAACCCT
* * ***
49931406 TATGGGTTTCCGTTCAGGTCT
1 TATGAGTTTCCGTTTAACCCT
* * *
49931427 TACGAGCTTCCGTTCAACCCT
1 TATGAGTTTCCGTTTAACCCT
*
49931448 TATGGGTTTCCGTTTA
1 TATGAGTTTCCGTTTA
49931464 GCTCTCATGA
Statistics
Matches: 72, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TATGAGTTTCCGTTTAACCCT
Found at i:49931401 original size:42 final size:42
Alignment explanation
Indices: 49931337--49931477 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 42
49931327 AGCTTTAGTT
* * * *
49931337 AACTCATATGAGTTTCCGTTTAACCCCTATGAGTTTCCATTC
1 AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
* * *
49931379 AACTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTC
1 AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
** * * * *
49931421 AGGTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTT
1 AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
* *
49931463 AGCTCTCATGAGCTT
1 AACTCTTATGAGCTT
49931478 TTGTTTAGCC
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (42 bp):
AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
Found at i:49933103 original size:24 final size:26
Alignment explanation
Indices: 49933076--49933125 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
49933066 TATATCGGGT
*
49933076 AGCTCTGAAGAGCAC-TTAAC-GAGA
1 AGCTCCGAAGAGCACTTTAACAGAGA
*
49933100 AGCTCCGAATAGCACTTTAACAGAGA
1 AGCTCCGAAGAGCACTTTAACAGAGA
49933126 GCACCGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 5 0.23
26 4 0.18
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGCTCCGAAGAGCACTTTAACAGAGA
Found at i:49933136 original size:25 final size:24
Alignment explanation
Indices: 49933086--49933137 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
49933076 AGCTCTGAAG
*
49933086 AGCACTTAACGAGAAGCTCCGAAT
1 AGCACTTAACGAGAAGCACCGAAT
*
49933110 AGCACTTTAAC-AGAGAGCACCGGAT
1 AGCAC-TTAACGAGA-AGCACCGAAT
49933135 AGC
1 AGC
49933138 CATATAACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (24 bp):
AGCACTTAACGAGAAGCACCGAAT
Found at i:49933192 original size:24 final size:26
Alignment explanation
Indices: 49933165--49933222 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
49933155 AAGCGAGCAC
*
49933165 TAACAGAAAGCTC-CGAAGAGCCT-T
1 TAACAGAAAGCTCACAAAGAGCCTAT
* *
49933189 TAACGGGAAGCTCACAAAGAGCCTAT
1 TAACAGAAAGCTCACAAAGAGCCTAT
*
49933215 AAACAGAA
1 TAACAGAA
49933223 CACTCATAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 11 0.42
25 9 0.35
26 6 0.23
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (26 bp):
TAACAGAAAGCTCACAAAGAGCCTAT
Found at i:49934232 original size:9 final size:9
Alignment explanation
Indices: 49934218--49934248 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49934208 GTTAAACGAA
49934218 TCGAGTTAT
1 TCGAGTTAT
*
49934227 TCGAGTTAA
1 TCGAGTTAT
49934236 TCGAGTTAT
1 TCGAGTTAT
49934245 TCGA
1 TCGA
49934249 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49934317 original size:9 final size:9
Alignment explanation
Indices: 49934300--49934336 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49934290 TGAGTTTTCG
49934300 AATTCGAAT
1 AATTCGAAT
*
49934309 AACTCGAAT
1 AATTCGAAT
49934318 AATTCGAAT
1 AATTCGAAT
49934327 AATTCGAAT
1 AATTCGAAT
49934336 A
1 A
49934337 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49934582 original size:29 final size:30
Alignment explanation
Indices: 49934550--49934607 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
49934540 AAACCTTTTA
* *
49934550 TTTTCCCCTAAAATTTTACTTCC-TCCCAC
1 TTTTCCACTAAAACTTTACTTCCTTCCCAC
*
49934579 TTTTCCACTAAAACTTTATTTCCTTCCCA
1 TTTTCCACTAAAACTTTACTTCCTTCCCA
49934608 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.22, C:0.34, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTCCACTAAAACTTTACTTCCTTCCCAC
Found at i:49934692 original size:19 final size:19
Alignment explanation
Indices: 49934660--49934696 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
49934650 TTTTTAATAT
49934660 TTTCCCTCCAAACTATTTAC
1 TTTCCCTCCAAACT-TTTAC
49934680 TTTCCCT-CAAACTTTTA
1 TTTCCCTCCAAACTTTTA
49934697 TTCTCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCCCTCCAAACTTTTAC
Found at i:49937150 original size:27 final size:26
Alignment explanation
Indices: 49937120--49937177 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
49937110 CACATAATTA
*
49937120 GGAAGCCCTC-TCTCGAGCCATATAATG
1 GGAAG-CCTCATCT-GAGCCATATAACG
*
49937147 GGAAG-CTCATGTGAGCCATATAACG
1 GGAAGCCTCATCTGAGCCATATAACG
49937172 GGAAGC
1 GGAAGC
49937178 TTATCCAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 20 0.74
26 2 0.07
27 5 0.19
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (26 bp):
GGAAGCCTCATCTGAGCCATATAACG
Found at i:49937164 original size:25 final size:25
Alignment explanation
Indices: 49937134--49937275 Score: 114
Period size: 24 Copynumber: 5.8 Consensus size: 25
49937124 GCCCTCTCTC
*
49937134 GAGCCATATAATGGGAAGCTCATGT
1 GAGCCATATAATGGGAAGCTCATGA
* * *
49937159 GAGCCATATAACGGGAAGCTTATCCA
1 GAGCCATATAATGGGAAGCTCAT-GA
*** *
49937185 G-GTTGTATAATGGGAAGCTCATAA
1 GAGCCATATAATGGGAAGCTCATGA
* *
49937209 GAGCCATA-ATTGGGAAGCTCATGC
1 GAGCCATATAATGGGAAGCTCATGA
* * *
49937233 GAGCCA-ATAACGGGTAGCTC-CGAA
1 GAGCCATATAATGGGAAGCTCATG-A
49937257 GAGCCAT-TAATGGGAAGCT
1 GAGCCATATAATGGGAAGCT
49937276 TTGAATAGCC
Statistics
Matches: 89, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
23 2 0.02
24 46 0.52
25 40 0.45
26 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCCATATAATGGGAAGCTCATGA
Found at i:49940453 original size:5 final size:5
Alignment explanation
Indices: 49940443--49940467 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49940433 CTAGCCATCC
49940443 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
49940468 CCCTTCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:49941999 original size:6 final size:6
Alignment explanation
Indices: 49941962--49942010 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
49941952 CCAAACACAC
* *
49941962 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
49942011 TTCAACACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 27 0.73
7 10 0.27
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:49942041 original size:45 final size:44
Alignment explanation
Indices: 49941990--49942118 Score: 186
Period size: 45 Copynumber: 2.9 Consensus size: 44
49941980 AACGGTAGCA
* *
49941990 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACC
* **
49942034 TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTC
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACC
*
49942079 GATAACAATAACAGTAACAGTATTCGACACACAAAGTGCC
1 G-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCC
49942119 AAATCAGTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 75 0.99
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (44 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAACC
Found at i:49945712 original size:19 final size:19
Alignment explanation
Indices: 49945688--49945726 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49945678 TTTCGTAAAT
49945688 TATATAATGTA-TGATGAAA
1 TATAT-ATGTATTGATGAAA
*
49945707 TATATATTTATTGATGAAA
1 TATATATGTATTGATGAAA
49945726 T
1 T
49945727 GAGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (19 bp):
TATATATGTATTGATGAAA
Found at i:49945874 original size:46 final size:46
Alignment explanation
Indices: 49945807--49946053 Score: 394
Period size: 46 Copynumber: 5.5 Consensus size: 46
49945797 TAATCAGTGA
*
49945807 CAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
49945853 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
49945899 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
* * * *
49945944 CAAGTGACAAAGTGAAAAGTAGTAGCTTTAGATACTCTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
49945990 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
49946035 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
49946054 ATCATACGTA
Statistics
Matches: 187, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 59 0.32
46 111 0.59
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:49945969 original size:91 final size:91
Alignment explanation
Indices: 49945807--49946052 Score: 406
Period size: 91 Copynumber: 2.7 Consensus size: 91
49945797 TAATCAGTGA
* *
49945807 CAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
* *
49945872 TGGTAGCTTTAGCTACACTTATCTGAT
65 TAGTAGCTTTAGATACACTTATCTGAT
*
49945899 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAAAAGT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
49945964 AGTAGCTTTAGATACTCTTATCTGAT
66 AGTAGCTTTAGATACACTTATCTGAT
*
49945990 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
49946053 GATCATACGT
Statistics
Matches: 146, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
89 10 0.07
90 5 0.03
91 106 0.73
92 25 0.17
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (91 bp):
CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
AGTAGCTTTAGATACACTTATCTGAT
Found at i:49946101 original size:137 final size:135
Alignment explanation
Indices: 49945807--49946055 Score: 369
Period size: 137 Copynumber: 1.8 Consensus size: 135
49945797 TAATCAGTGA
* *
49945807 CAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGA-AAAGTGA-AAGTAGTAGCTTTAGATACACTTATCTGATCAAGTGACAAAGTGATAAG
* * * * *
49945872 TGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTT
64 TGGTAGCTCTAGCTACACTTATCTGATCAAGGGACAAAGTGATAAGTGATAACCTAGCCACACTT
49945937 ATCTGAT
129 ATCTGAT
*
49945944 CAAGTGACAAAGTGAAAAGTAGTAGCTTTAGATACTCTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGA-AAAGTG-AAAGTAGTAGCTTTAGATACACTTATCTGATCAAGTGACAAAGTGATAAG
49946009 TGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGAT
64 TGGTAGCTCTAGCTACACTTATCTGATCAAGGGACAAAGTGATAAGTGAT
49946056 CATACGTAAG
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
134 13 0.12
135 5 0.05
136 19 0.18
137 66 0.63
138 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (135 bp):
CAAGTGAAAAGTGAAAGTAGTAGCTTTAGATACACTTATCTGATCAAGTGACAAAGTGATAAGTG
GTAGCTCTAGCTACACTTATCTGATCAAGGGACAAAGTGATAAGTGATAACCTAGCCACACTTAT
CTGAT
Found at i:49953859 original size:3 final size:3
Alignment explanation
Indices: 49953847--49953901 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
49953837 TTATTTAAGT
* * * * *
49953847 TTA TTT TTA TTA TTA TTA TTA TTA TTA GTG TTA TCA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49953895 TTA TTA T
1 TTA TTA T
49953902 ACTAATATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:49954222 original size:10 final size:10
Alignment explanation
Indices: 49954196--49954295 Score: 93
Period size: 10 Copynumber: 10.0 Consensus size: 10
49954186 GCAGCCCAGC
49954196 AGAAAAAA-A
1 AGAAAAAAGA
49954205 AGAGAAAAAGA
1 AGA-AAAAAGA
49954216 AGAAAAAATGAA
1 AGAAAAAA-G-A
*
49954228 AAAAAAAAGA
1 AGAAAAAAGA
49954238 AGAAAAAAGAGA
1 AG-AAAAA-AGA
49954250 AGAAAAAAGA
1 AGAAAAAAGA
49954260 AGAAAAAAGA
1 AGAAAAAAGA
*
49954270 A-AAAAGAGA
1 AGAAAAAAGA
*
49954279 A-AAAGAA-A
1 AGAAAAAAGA
49954287 A-AAAAAAGA
1 AGAAAAAAGA
49954296 GGTTCAATTC
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.09
9 16 0.21
10 26 0.33
11 16 0.21
12 13 0.17
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (10 bp):
AGAAAAAAGA
Found at i:49954234 original size:22 final size:21
Alignment explanation
Indices: 49954196--49954293 Score: 112
Period size: 22 Copynumber: 4.6 Consensus size: 21
49954186 GCAGCCCAGC
* *
49954196 AGAAAAAA-AAGAGAAAAAGA
1 AGAAAAAAGAAAAAAAAAAGA
49954216 AGAAAAAATGAAAAAAAAAAGA
1 AGAAAAAA-GAAAAAAAAAAGA
*
49954238 AGAAAAAAGAGAAGAAAAAAGA
1 AGAAAAAAGA-AAAAAAAAAGA
49954260 AGAAAAAAGAAAAAAGAGAAA-A
1 AGAAAAAAGAAAAAA-A-AAAGA
49954282 AGAAAAAA-AAAA
1 AGAAAAAAGAAAA
49954294 GAGGTTCAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.12
21 10 0.14
22 48 0.70
23 3 0.04
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (21 bp):
AGAAAAAAGAAAAAAAAAAGA
Found at i:49954264 original size:44 final size:42
Alignment explanation
Indices: 49954196--49954291 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 42
49954186 GCAGCCCAGC
49954196 AGAAAAAAAAGAGAAAAAGAAGAAAAAATGAAAAAA-A-AAAGA
1 AGAAAAAAAAGAGAAAAAGAAGAAAAAA-GAAAAAAGAGAAA-A
*
49954238 AGAAAAAAGAGAAGAAAAAAGAAGAAAAAAGAAAAAAGAGAAAA
1 AGAAAAAAAAG-AG-AAAAAGAAGAAAAAAGAAAAAAGAGAAAA
49954282 AGAAAAAAAA
1 AGAAAAAAAA
49954292 AAGAGGTTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
42 10 0.21
43 9 0.19
44 26 0.54
45 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (42 bp):
AGAAAAAAAAGAGAAAAAGAAGAAAAAAGAAAAAAGAGAAAA
Found at i:49954639 original size:18 final size:18
Alignment explanation
Indices: 49954618--49955224 Score: 243
Period size: 18 Copynumber: 34.1 Consensus size: 18
49954608 ATTGTAAATA
49954618 TTCAAAAAATTTCGTGTT
1 TTCAAAAAATTTCGTGTT
49954636 TTCACAAAAAATTTCCGTG-T
1 TT--CAAAAAATTT-CGTGTT
* * **
49954656 TTC-GAAATTTTCGTGGC
1 TTCAAAAAATTTCGTGTT
49954673 TTCAAAATAATTTTTC-TCGTGT
1 TTCAAAA-AA--TTTCGT-GT-T
49954695 TTCAAAAAATATTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
* * *
49954714 TTCAAAAGATTCCAT-TT
1 TTCAAAAAATTTCGTGTT
*
49954731 TTC-AAAATTTTCCGTGTT
1 TTCAAAAAATTT-CGTGTT
* *
49954749 TTCTAAAAATTTCCATG-T
1 TTCAAAAAATTT-CGTGTT
*
49954767 TTC-TAAAATTT-GTG-T
1 TTCAAAAAATTTCGTGTT
* *
49954782 TTCAAAAATTTTCGTGTA
1 TTCAAAAAATTTCGTGTT
*** * *
49954800 TTCAAATTTTTTTTGTATT
1 TTCAAA-AAATTTCGTGTT
*
49954819 TTC-AACAATTCTCGTG-T
1 TTCAAAAAATT-TCGTGTT
* *
49954836 TTCACAAATTTTCGTGTT
1 TTCAAAAAATTTCGTGTT
*** **
49954854 TT-AAATTTTTTTATGTT
1 TTCAAAAAATTTCGTGTT
*
49954871 TTAAAAAAAATTCTCGTG-T
1 TT-CAAAAAATT-TCGTGTT
*
49954890 TTCAAAAAATTGTCGTCTT
1 TTCAAAAAATT-TCGTGTT
49954909 TT--AAAAATTT-GTG-T
1 TTCAAAAAATTTCGTGTT
* * *
49954923 TTCTAAAATTTTCGT-AT
1 TTCAAAAAATTTCGTGTT
* *
49954940 TTCAAAAATTTTTGTGTT
1 TTCAAAAAATTTCGTGTT
*
49954958 TT-AAAAAATTCCGTGTT
1 TTCAAAAAATTTCGTGTT
49954975 TTC-AAAAATTTCCGTGTT
1 TTCAAAAAATTT-CGTGTT
*
49954993 TTC-AAAAATTCTGGTG-T
1 TTCAAAAAATT-TCGTGTT
*
49955010 TTCAAAAAATTCCCGTGTT
1 TTCAAAAAATT-TCGTGTT
*
49955029 TT--AAAAATTTCCTTGTT
1 TTCAAAAAATTT-CGTGTT
* * *
49955046 TTCAAAAATTTTCATGGT
1 TTCAAAAAATTTCGTGTT
**
49955064 TTC--AAAATTTTTTGTAT
1 TTCAAAAAATTTCGTGT-T
*
49955081 TTC-AAAAATCCTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
49955099 TTC-AAAAATTTCGGTGTT
1 TTCAAAAAATTTC-GTGTT
* *
49955117 TT-GAAAATTTTCGTGTT
1 TTCAAAAAATTTCGTGTT
* *
49955134 TTCAAAAAAATCTCTTG-T
1 TTC-AAAAAATTTCGTGTT
* * *
49955152 TTCATAAATTTTCGTTTT
1 TTCAAAAAATTTCGTGTT
* * ***
49955170 TTAAAAAAAATAATTG-T
1 TTCAAAAAATTTCGTGTT
49955187 TTC-AAAAATCTTCGTGTT
1 TTCAAAAAAT-TTCGTGTT
* * *
49955205 TTAAAAAAAATTCGTATT
1 TTCAAAAAATTTCGTGTT
49955223 TT
1 TT
49955225 GATCGGATCG
Statistics
Matches: 441, Mismatches: 98, Indels: 100
0.69 0.15 0.16
Matches are distributed among these distances:
14 3 0.01
15 8 0.02
16 36 0.08
17 138 0.31
18 142 0.32
19 73 0.17
20 22 0.05
21 12 0.03
22 7 0.02
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (18 bp):
TTCAAAAAATTTCGTGTT
Found at i:49954810 original size:17 final size:16
Alignment explanation
Indices: 49954643--49955140 Score: 138
Period size: 17 Copynumber: 28.2 Consensus size: 16
49954633 GTTTTCACAA
*
49954643 AAAATTTCCGTGTTTC
1 AAAATTTTCGTGTTTC
* *
49954659 GAAATTTTCGTGGCTTC
1 AAAATTTTCGT-GTTTC
49954676 AAAATAATTTTTCTCGTGTTTC
1 --AA-AA--TTT-TCGTGTTTC
*
49954698 AAAAAATATTCGTGTTTTC
1 --AAAATTTTCGTG-TTTC
* * * *
49954717 AAAAGATTCCATTTTTC
1 AAAA-TTTTCGTGTTTC
49954734 AAAATTTTCCGTGTTTTC
1 AAAATTTT-CGTG-TTTC
* *
49954752 TAAAAATTTCCATGTTTC
1 --AAAATTTTCGTGTTTC
49954770 TAAAA-TTT-GTGTTTC
1 -AAAATTTTCGTGTTTC
49954785 AAAAATTTTCGTGTATTC
1 -AAAATTTTCGTGT-TTC
* * *
49954803 AAATTTTTTTTGTATTTTC
1 AAA--ATTTTCGT-GTTTC
*
49954822 AACAATTCTCGTGTTTC
1 AA-AATTTTCGTGTTTC
*
49954839 ACAAATTTTCGTGTTTT
1 A-AAATTTTCGTGTTTC
* ** *
49954856 AAATTTTTTTATGTTTTAAAA
1 AAA-ATTTTCGTG-TTT---C
*
49954877 AAAATTCTCGTGTTTC
1 AAAATTTTCGTGTTTC
* * *
49954893 AAAAAATTGTCGTCTTTT
1 --AAAATTTTCGTGTTTC
*
49954911 AAAAATTT-GTGTTTC
1 AAAATTTTCGTGTTTC
*
49954926 TAAAATTTTCGTATTTC
1 -AAAATTTTCGTGTTTC
* *
49954943 AAAAATTTTTGTGTTTTA
1 -AAAATTTTCGTG-TTTC
* *
49954961 AAAAATTCCGTGTTTTC
1 AAAATTTTCGTG-TTTC
*
49954978 AAAAATTTCCGTGTTTTC
1 -AAAATTTTCGTG-TTTC
* *
49954996 AAAAATTCTGGTGTTTC
1 -AAAATTTTCGTGTTTC
** *
49955013 AAAAAATTCCCGTGTTTTA
1 --AAAATTTTCGTG-TTTC
* *
49955032 AAAATTTCCTTGTTTTC
1 AAAATTTTCGTG-TTTC
*
49955049 AAAAATTTTCATGGTTTC
1 -AAAATTTTCGT-GTTTC
* *
49955067 AAAATTTTTTGTATTTC
1 AAAA-TTTTCGTGTTTC
**
49955084 AAAAATCCTCGTGTTTTC
1 -AAAATTTTCGTG-TTTC
* *
49955102 AAAAATTTCGGTGTTTTG
1 AAAATTTTC-GTG-TTTC
49955120 AAAATTTTCGTGTTTTC
1 AAAATTTTCGTG-TTTC
49955137 AAAA
1 AAAA
49955141 AAATCTCTTG
Statistics
Matches: 361, Mismatches: 81, Indels: 79
0.69 0.16 0.15
Matches are distributed among these distances:
15 15 0.04
16 31 0.09
17 129 0.36
18 122 0.34
19 28 0.08
20 16 0.04
21 5 0.01
22 11 0.03
23 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (16 bp):
AAAATTTTCGTGTTTC
Found at i:49954978 original size:35 final size:35
Alignment explanation
Indices: 49954618--49955212 Score: 238
Period size: 35 Copynumber: 16.7 Consensus size: 35
49954608 ATTGTAAATA
*
49954618 TTCAAAAAATTTCGTGTTTTCACAAAAAATTTCCGTG-T
1 TTCAAAAATTTTCGTGTTTT---AAAAAA-TTCCGTGTT
* * *
49954656 TTC-GAAATTTTCGTGGCTTCAAAATAATTTTTCTCGTG-T
1 TTCAAAAATTTTCGT-GTTTTAAAA-AA---TTC-CGTGTT
* * *
49954695 TTCAAAAAATATTCGTGTTTTCAAAAGATTCCAT-TT
1 TTC-AAAAATTTTCGTGTTTT-AAAAAATTCCGTGTT
* *
49954731 TTC-AAAATTTTCCGTGTTTTCTAAAAATTTCCATG-T
1 TTCAAAAATTTT-CGTG-TTT-TAAAAAATTCCGTGTT
* * * * *
49954767 TTCTAAAA-TTT-GTGTTTCAAAAATTTTCGTGTA
1 TTCAAAAATTTTCGTGTTTTAAAAAATTCCGTGTT
** * * * *
49954800 TTCAAATTTTTTTTGTATTTTCAACAATTCTCGTG-T
1 TTCAAA-AATTTTCGTGTTTTAAAAAATTC-CGTGTT
* *** ***
49954836 TTCACAAATTTTCGTGTTTTAAATTTTTTTATGTT
1 TTCAAAAATTTTCGTGTTTTAAAAAATTCCGTGTT
* * * * *
49954871 TTAAAAAAAATTCTCGTGTTTCAAAAAATTGTCGTCTT
1 TT--CAAAAATTTTCGTGTTTTAAAAAATT-CCGTGTT
* * *
49954909 TT-AAAAA-TTT-GTGTTTCT-AAAATTTTCGT-AT
1 TTCAAAAATTTTCGTGTTT-TAAAAAATTCCGTGTT
*
49954940 TTCAAAAATTTTTGTGTTTTAAAAAATTCCGTGTT
1 TTCAAAAATTTTCGTGTTTTAAAAAATTCCGTGTT
* * *
49954975 TTCAAAAATTTCCGTGTTTTCAAAAATTCTG-GTGT
1 TTCAAAAATTTTCGTGTTTTAAAAAATTCCGTGT-T
** * *
49955010 TTCAAAAAATTCCCGTGTTTTAAAAATTTCCTTGTT
1 TTC-AAAAATTTTCGTGTTTTAAAAAATTCCGTGTT
* * * ***
49955046 TTCAAAAATTTTCATGGTTT-CAAAATTTTTTGTAT
1 TTCAAAAATTTTCGTGTTTTAAAAAATTCCGTGT-T
** * *
49955081 TTCAAAAATCCTCGTGTTTTCAAAAATTTCGGTGTT
1 TTCAAAAATTTTCGTGTTTT-AAAAAATTCCGTGTT
* * *
49955117 TT-GAAAATTTTCGTGTTTTCAAAAAAATCTCTTG-T
1 TTCAAAAATTTTCGTGTTTT-AAAAAATTC-CGTGTT
* * * ***
49955152 TTCATAAATTTTCGTTTTTTAAAAAAAATAATTG-T
1 TTCAAAAATTTTCGTGTTTT-AAAAAATTCCGTGTT
*
49955187 TTCAAAAATCTTCGTGTTTTAAAAAA
1 TTCAAAAATTTTCGTGTTTTAAAAAA
49955213 AATTCGTATT
Statistics
Matches: 422, Mismatches: 98, Indels: 78
0.71 0.16 0.13
Matches are distributed among these distances:
31 3 0.01
32 20 0.05
33 24 0.06
34 46 0.11
35 141 0.33
36 97 0.23
37 50 0.12
38 16 0.04
39 8 0.02
40 4 0.01
41 13 0.03
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (35 bp):
TTCAAAAATTTTCGTGTTTTAAAAAATTCCGTGTT
Found at i:49967296 original size:78 final size:78
Alignment explanation
Indices: 49967185--49967699 Score: 482
Period size: 78 Copynumber: 6.6 Consensus size: 78
49967175 CTTTTTTTTC
49967185 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CATGCCGAGGTATT
1 TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACGCATGCCGAGGTA-T
*
49967249 TCTTTTAAATTTATG
64 TCTTTTAAATTTATA
49967264 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CATGCCGAGGTATTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACGCATGCCGAGGTA-TT
* *
49967328 CTTTTTAATTTCTATT
65 C-TTTTAAATT-TATA
*** * * * *
49967344 TTTTTGTTAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCCGACACATGACGAGGTATTT
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACGCATGCCGAGGTA-TT
* *
49967409 CTTTTAAATTTCTG
65 CTTTTAAATTTATA
* * * * *
49967423 TTTTTC-AAAAATCAACTC--ATTACGAGAGATGAGTTGAGCCTCGGGTCGCACGCTGAGGTA--
1 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACGCATGCCGAGGTATT
* *
49967483 -TTTTAAATATCTA
65 CTTTTAAATTTATA
* * * *
49967496 TTTTTGC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGA-GTCAAGTCGAGGTAT
1 TTTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACG-CATGCCGAGGTAT
*
49967558 T-TTTCAAATTT-TA
64 TCTTTTAAATTTATA
* * * * * *
49967571 CTTCTCAAAAAAAAATTAACTCATATTGCGAGAGGTAAGTGGAGCCTCGGATCGCATGCCGATGT
1 TTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-CGCATGCCGAGGT
* *
49967636 ATTCTTTTCAATTTCTA
62 ATTCTTTTAAATTTATA
* * * *
49967653 TTTTCCAAAAAATCAACTCATAATT-CGAAATGTGAGTTGAGCTTCGG
1 TTTTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGG
49967700 GTTGCACGCC
Statistics
Matches: 361, Mismatches: 55, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
73 17 0.05
74 24 0.07
75 5 0.01
76 50 0.14
77 11 0.03
78 102 0.28
79 54 0.15
80 69 0.19
81 24 0.07
82 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (78 bp):
TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACGCATGCCGAGGTATTC
TTTTAAATTTATA
Found at i:49967375 original size:158 final size:157
Alignment explanation
Indices: 49967193--49967694 Score: 523
Period size: 158 Copynumber: 3.2 Consensus size: 157
49967183 TCTTTTTCAA
* *
49967193 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGACCATGACGAGGTATTTCTTTTAAA
49967258 TTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC-CATGCCGAG
66 TTT-TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACGCATGCCGAG
* *
49967322 GTATTTCTTTTTAATTTCTATTTTTTTGT
130 GTA-TTCTTTTAAATTTCTATTTTTTTGC
* *
49967351 TAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCCGACACATGACGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGAC-CATGACGAGGTATTTCTTTTAA
* * * * *
49967416 ATTTCTGTTTTTC-AAAAATCAACTC--ATTACGAGAGATGAGTTGAGCCTCGGGTCGCACGCTG
65 ATTT-TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACGCATGCCG
*
49967478 AGGTA---TTTTAAATATCTA--TTTTTGC
128 AGGTATTCTTTTAAATTTCTATTTTTTTGC
* * * * * *
49967503 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-TGAGTCAAGTCGAGGTA-TT-TTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGA-CCATGACGAGGTATTTCTTTTAA
** * * * *
49967565 ATTTTACTTCTCAAAAAAAAATTAACTCATATTGCGAGAGGTAAGTGGAGCCTCGGATCGCATGC
65 ATTTTGTTTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-CGCATGC
* * *
49967630 CGATGTATTCTTTTCAATTTCTA---TTTTCC
126 CGAGGTATTCTTTTAAATTTCTATTTTTTTGC
* *
49967659 AAAAAATCAACTCATAATT-CGAAATGTGAGTTGAGC
1 -AAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGC
49967695 TTCGGGTTGC
Statistics
Matches: 289, Mismatches: 39, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
148 5 0.02
149 9 0.03
150 2 0.01
151 12 0.04
152 51 0.18
153 2 0.01
154 42 0.15
156 27 0.09
157 42 0.15
158 64 0.22
159 33 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (157 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGACCATGACGAGGTATTTCTTTTAAA
TTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACGCATGCCGAGG
TATTCTTTTAAATTTCTATTTTTTTGC
Found at i:49967944 original size:29 final size:29
Alignment explanation
Indices: 49967898--49968030 Score: 142
Period size: 30 Copynumber: 4.5 Consensus size: 29
49967888 AAAATAAAAA
*
49967898 AAATTACATTTTGGCCCCTAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
* *
49967927 AAATTGCATTTTGACCCCTAAA-TTTTCCTA
1 AAATTACATTTTGACCCCTAAACTTTT--TG
* * *
49967957 AAATTATATTTTAACCCCTAAATTTTTTTG
1 AAATTACATTTTGACCCCTAAA-CTTTTTG
* * *
49967987 AAACTACATTTTAACCCATAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
*
49968016 AAATTACATTATGAC
1 AAATTACATTTTGAC
49968031 TCTTACGTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.05
29 38 0.44
30 40 0.47
32 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTTTG
Found at i:49968020 original size:59 final size:58
Alignment explanation
Indices: 49967897--49968025 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 58
49967887 AAAAATAAAA
** * * * *
49967897 AAAATTACATTTTGGCCCCTAAACTTTTTGAAATTGCATTTTGACCCCTAAATTTTCCT
1 AAAATTACATTTTAACCCCTAAACTTTTTGAAACTACATTTTAACCCATAAATTTT-CT
* *
49967956 AAAATTATATTTTAACCCCTAAATTTTTTTGAAACTACATTTTAACCCATAAACTTTT-T
1 AAAATTACATTTTAACCCCTAAA-CTTTTTGAAACTACATTTTAACCCATAAA-TTTTCT
*
49968015 GAAATTACATT
1 AAAATTACATT
49968026 ATGACTCTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
59 30 0.52
60 24 0.41
61 4 0.07
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (58 bp):
AAAATTACATTTTAACCCCTAAACTTTTTGAAACTACATTTTAACCCATAAATTTTCT
Found at i:49968291 original size:16 final size:15
Alignment explanation
Indices: 49968270--49968324 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
49968260 TTAAAAAAAA
49968270 AAAAGAAATAGGAGAG
1 AAAAGAAA-AGGAGAG
49968286 AAAAGAGAAAGGAGAG
1 AAAAGA-AAAGGAGAG
49968302 AAAAG-AAAGGA-AG
1 AAAAGAAAAGGAGAG
*
49968315 AAGAGAAAAG
1 AAAAGAAAAG
49968325 AGGGGAAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 6 0.17
14 10 0.28
16 18 0.50
17 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAGGAGAG
Found at i:49968394 original size:3 final size:3
Alignment explanation
Indices: 49968386--49968419 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
49968376 AGTTTCCAAG
*
49968386 AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
49968420 AAAAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49968725 original size:18 final size:18
Alignment explanation
Indices: 49968704--49968764 Score: 88
Period size: 18 Copynumber: 3.3 Consensus size: 18
49968694 CCAGCAGAAA
*
49968704 AAAAAAGAGAAAAAGAAG
1 AAAAAAGAGAAAAAAAAG
49968722 AAAAAAG-GAAAAAAAAAG
1 AAAAAAGAG-AAAAAAAAG
49968740 AAAAAAGAGAAGAAAAAAG
1 AAAAAAGAGAA-AAAAAAG
49968759 AAAAAA
1 AAAAAA
49968765 AAAAAAGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 1 0.03
18 24 0.62
19 14 0.36
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGAAAAAAAAG
Found at i:49968745 original size:29 final size:30
Alignment explanation
Indices: 49968700--49968768 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
49968690 CAGCCCAGCA
*
49968700 GAAAAAAAAAGAGAAAA-AGAAGAAAAAAG
1 GAAAAAAAAAGAAAAAAGAGAAGAAAAAAG
49968729 GAAAAAAAAAGAAAAAAGAGAAGAAAAAAG
1 GAAAAAAAAAGAAAAAAGAGAAGAAAAAAG
*
49968759 AAAAAAAAAA
1 GAAAAAAAAA
49968769 AAGGTTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (30 bp):
GAAAAAAAAAGAAAAAAGAGAAGAAAAAAG
Found at i:49968944 original size:7 final size:8
Alignment explanation
Indices: 49968902--49968946 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
49968892 CATTTTATGC
49968902 ATTTTTAT
1 ATTTTTAT
49968910 ATTTTTAT
1 ATTTTTAT
**
49968918 ATTTTGGT
1 ATTTTTAT
49968926 A--TTTAT
1 ATTTTTAT
49968932 ATTTTTA-
1 ATTTTTAT
49968939 ATTTTTAT
1 ATTTTTAT
49968947 TCAATTCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
6 4 0.13
7 7 0.23
8 19 0.63
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (8 bp):
ATTTTTAT
Found at i:49969059 original size:18 final size:18
Alignment explanation
Indices: 49969038--49969416 Score: 173
Period size: 18 Copynumber: 21.1 Consensus size: 18
49969028 ATTGTAAATA
49969038 TTCAAAAAATTTCGTGTT
1 TTCAAAAAATTTCGTGTT
49969056 TTCACAAAAAATTTCCGTGTT
1 TT--CAAAAAATTT-CGTGTT
* * **
49969077 TT--GAAATTTTCGTGGC
1 TTCAAAAAATTTCGTGTT
49969093 TTCAAAATAATTTTTATCGTG-T
1 TTCAAAA-AA---TT-TCGTGTT
*
49969115 TTCAAAAAATATTTGTGTT
1 TTCAAAAAAT-TTCGTGTT
* * *
49969134 TTCAAAAGATTCCAT-TT
1 TTCAAAAAATTTCGTGTT
*
49969151 TTC-AAAATTTTCCGTGTT
1 TTCAAAAAATTT-CGTGTT
* *
49969169 TTCTAAAAATTTCCATG-T
1 TTCAAAAAATTT-CGTGTT
*
49969187 TTC-TAAAATTT-GTG-T
1 TTCAAAAAATTTCGTGTT
* * *
49969202 TTCGAAAATTTTCGTGTA
1 TTCAAAAAATTTCGTGTT
* * *
49969220 TTCAAAAATTTTTTGTATT
1 TTCAAAAA-ATTTCGTGTT
*
49969239 TTC-AACAATTCTCGTG-T
1 TTCAAAAAATT-TCGTGTT
*
49969256 TTCAAAAAATTATCGTCTT
1 TTCAAAAAATT-TCGTGTT
* *
49969275 TT-AAAAATTTTTGTG-T
1 TTCAAAAAATTTCGTGTT
*
49969291 TTC-TAAAATTTCCGTGTT
1 TTCAAAAAATTT-CGTGTT
* *
49969309 TTCAAAAATTTTCGTGGT
1 TTCAAAAAATTTCGTGTT
** ** *
49969327 TTCAAAATTTTTAAT-AT
1 TTCAAAAAATTTCGTGTT
49969344 TTC-AAAAATTCTCGTGTT
1 TTCAAAAAATT-TCGTGTT
49969362 TTC-AAAAATTTCGGTGTT
1 TTCAAAAAATTTC-GTGTT
* *
49969380 TT-GAAAATTTTCGTGTT
1 TTCAAAAAATTTCGTGTT
*
49969397 TTCAAAAAAATCTCGTGTT
1 TTC-AAAAAATTTCGTGTT
49969416 T
1 T
49969417 CATAAATTTT
Statistics
Matches: 273, Mismatches: 56, Indels: 63
0.70 0.14 0.16
Matches are distributed among these distances:
15 6 0.02
16 31 0.11
17 50 0.18
18 97 0.36
19 55 0.20
20 10 0.04
21 10 0.04
22 9 0.03
23 5 0.02
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (18 bp):
TTCAAAAAATTTCGTGTT
Found at i:49969065 original size:20 final size:21
Alignment explanation
Indices: 49969040--49969078 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
49969030 TGTAAATATT
49969040 CAAAAAATTT-CGTGTTTTCA
1 CAAAAAATTTCCGTGTTTTCA
49969060 CAAAAAATTTCCGTGTTTT
1 CAAAAAATTTCCGTGTTTT
49969079 GAAATTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (21 bp):
CAAAAAATTTCCGTGTTTTCA
Found at i:49969316 original size:35 final size:34
Alignment explanation
Indices: 49969042--49969427 Score: 221
Period size: 35 Copynumber: 10.8 Consensus size: 34
49969032 TAAATATTCA
* *
49969042 AAAAATTTCGTGTTTTCACAAAAAATTTCCGTGTTTT
1 AAAAATTTCGTGTTTT--C-AAAAATTTTCGTGTTTC
* * **
49969079 GAAATTTTCGTGGCTTCAAAATAATTTTTATCGTGTTTC
1 AAAAATTTCGTGTTTTC-AAA-AA--TTT-TCGTGTTTC
* * * *
49969118 AAAAAATATTTGTGTTTTCAAAAGA-TTCCATTTTTC
1 -AAAAAT-TTCGTGTTTTCAAAA-ATTTTCGTGTTTC
* * *
49969154 AAAATTTTCCGTGTTTTCTAAAAATTTCCATGTTTC
1 AAAAATTT-CGTGTTTTC-AAAAATTTTCGTGTTTC
* *
49969190 TAAAATTT-GTG-TTTCGAAAATTTTCGTGTATTC
1 AAAAATTTCGTGTTTTCAAAAATTTTCGTGT-TTC
* * * *
49969223 AAAAATTTTTTGTATTTTCAACAATTCTCGTGTTTC
1 AAAAA--TTTCGTGTTTTCAAAAATTTTCGTGTTTC
* *
49969259 AAAAAATTATCGTCTTTT-AAAAATTTTTGTGTTTC
1 -AAAAATT-TCGTGTTTTCAAAAATTTTCGTGTTTC
*
49969294 TAAAATTTCCGTGTTTTCAAAAATTTTCGTGGTTTC
1 AAAAATTT-CGTGTTTTCAAAAATTTTCGT-GTTTC
* * *
49969330 -AAAATTT-TTAATATTTCAAAAATTCTCGTGTTTTC
1 AAAAATTTCGT-GT-TTTCAAAAATTTTCGTG-TTTC
*
49969365 AAAAATTTCGGTGTTTT-GAAAATTTTCGTGTTTTC
1 AAAAATTTC-GTGTTTTCAAAAATTTTCGTG-TTTC
* *
49969400 AAAAAAATCTCGTG-TTTCATAAATTTTC
1 --AAAAATTTCGTGTTTTCAAAAATTTTC
49969428 ATTTTTTTTA
Statistics
Matches: 275, Mismatches: 45, Indels: 59
0.73 0.12 0.16
Matches are distributed among these distances:
32 11 0.04
33 13 0.05
34 20 0.07
35 94 0.34
36 66 0.24
37 43 0.16
38 4 0.01
39 8 0.03
40 8 0.03
41 8 0.03
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (34 bp):
AAAAATTTCGTGTTTTCAAAAATTTTCGTGTTTC
Found at i:49969400 original size:53 final size:50
Alignment explanation
Indices: 49969109--49969425 Score: 207
Period size: 53 Copynumber: 6.0 Consensus size: 50
49969099 ATAATTTTTA
* * * *
49969109 TCGTGTTTCAAAAAATATTTGTGTTTTCAAAAGATTC-CATTTTTCAAAATTT
1 TCGTGTTT-TAAAAAT-TTTGTGTTTTCAAAA-ATTCTCGTGTTTCAAAAATT
** * *
49969161 TCCGTGTTTTCTAAAAATTTCCATG-TTTCTAAAATT-T-GTGTTTCGAAAATTT
1 T-CGTG-TTT-TAAAAATTT-TGTGTTTTCAAAAATTCTCGTGTTTC-AAAAATT
* * *
49969213 TCGTGTATTCAAAAATTTTTTGTATTTTCAACAATTCTCGTGTTTCAAAAAATT
1 TCGTGT-TTTAAAAA--TTTTGTGTTTTCAAAAATTCTCGTGTTTC-AAAAATT
* *
49969267 ATCGTCTTTTAAAAATTTT-TGTGTTTCTAAAATT-TCCGTGTTTTCAAAAATTT
1 -TCGTGTTTTAAAAATTTTGTGT-TTTCAAAAATTCT-CGTG-TTTCAAAAA-TT
* * *
49969320 TCGTGGTTTCAAAATTTT-TAATATTTCAAAAATTCTCGTGTTTTCAAAAATT
1 TCGTGTTTTAAAAATTTTGT-GT-TTTCAAAAATTCTCGTG-TTTCAAAAATT
* * *
49969372 TCGGTGTTTTGAAAATTTTCGTGTTTTCAAAAAAATCTCGTGTTTCATAAATT
1 TC-GTGTTTTAAAAATTTT-GTGTTTTC-AAAAATTCTCGTGTTTCAAAAATT
49969425 T
1 T
49969426 TCATTTTTTT
Statistics
Matches: 213, Mismatches: 30, Indels: 43
0.74 0.10 0.15
Matches are distributed among these distances:
50 6 0.03
51 15 0.07
52 66 0.31
53 74 0.35
54 46 0.22
55 6 0.03
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (50 bp):
TCGTGTTTTAAAAATTTTGTGTTTTCAAAAATTCTCGTGTTTCAAAAATT
Found at i:49972585 original size:18 final size:18
Alignment explanation
Indices: 49972564--49972733 Score: 152
Period size: 18 Copynumber: 9.6 Consensus size: 18
49972554 CAGGAGAATT
* *
49972564 TTTTTGAAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
*
49972582 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
** * *
49972600 TTTGCG-AAGCACGAGAAT
1 TTTTTGAAAACACGA-AAA
49972618 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
49972636 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
49972654 TTTTTG-AAACACGGAAAT
1 TTTTTGAAAACAC-GAAAA
*
49972672 TTTTTGAAAACACGAATA
1 TTTTTGAAAACACGAAAA
49972690 TTTTTG-AAACACCG--AA
1 TTTTTGAAAACA-CGAAAA
***
49972706 TTTTTTTTAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
49972724 ATTTTGAAAA
1 TTTTTGAAAA
49972734 ATGGAATTTT
Statistics
Matches: 120, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
16 8 0.07
17 22 0.18
18 77 0.64
19 13 0.11
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:49972586 original size:54 final size:51
Alignment explanation
Indices: 49972528--49972701 Score: 197
Period size: 54 Copynumber: 3.2 Consensus size: 51
49972518 ACGAATTTGT
* *
49972528 TTTTTAAAACACAAAAATTTTTGTAACAGGAGAATTTTTTTGAAAACGCGAGAA
1 TTTTTAAAACACGAAAATTTTTG-AACAGGAGAA-TTTTTTGAAAACACGA-AA
** *
49972582 TTTTTAAAAACACGAAAATTTGCGAAGCACGAGAATTTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAATTTTTGAA-CAGGAGAATTTTTTGAAAACACG-AAA
49972636 TTTTTTAAAACACGAAAATTTTTGAAACACGGA-AATTTTTTGAAAACACGAATA
1 -TTTTTAAAACACGAAAATTTTTG-AACA-GGAGAATTTTTTGAAAACACGAA-A
*
49972690 TTTTTGAAACAC
1 TTTTTAAAACAC
49972702 CGAATTTTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
53 13 0.12
54 59 0.57
55 32 0.31
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (51 bp):
TTTTTAAAACACGAAAATTTTTGAACAGGAGAATTTTTTGAAAACACGAAA
Found at i:49972616 original size:109 final size:107
Alignment explanation
Indices: 49972480--49972682 Score: 252
Period size: 109 Copynumber: 1.9 Consensus size: 107
49972470 AATTTTTTTG
* * **
49972480 AAACACGAAAACTTTGGAAATATGAGAA-TTTT-AAGAACACGAATTTGTTTTTTAAAACACAAA
1 AAACACGAAAACTTTGGAAACACGAGAATTTTTGAA-AACACGAA--AATTTTTTAAAACACAAA
*
49972543 AATTTTTGTAACA-GGAGAATTTTTTTGAAAACGCGAGAATTTTTAA
63 AATTTTTGAAACACGGA-AA-TTTTTTGAAAACGCGAGAATTTTTAA
* *
49972589 AAACACGAAAA-TTTGCGAAGCACGAGAATTTTTTGAAAACACGAAAATTTTTTAAAACACGAAA
1 AAACACGAAAACTTTG-GAAACACGAGAA-TTTTTGAAAACACGAAAATTTTTTAAAACACAAAA
49972653 ATTTTTGAAACACGGAAATTTTTTGAAAAC
64 ATTTTTGAAACACGGAAATTTTTTGAAAAC
49972683 ACGAATATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
108 16 0.20
109 49 0.60
110 3 0.04
111 12 0.15
112 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (107 bp):
AAACACGAAAACTTTGGAAACACGAGAATTTTTGAAAACACGAAAATTTTTTAAAACACAAAAAT
TTTTGAAACACGGAAATTTTTTGAAAACGCGAGAATTTTTAA
Found at i:49972658 original size:36 final size:35
Alignment explanation
Indices: 49972527--49972732 Score: 175
Period size: 36 Copynumber: 5.8 Consensus size: 35
49972517 CACGAATTTG
* * * *
49972527 TTTTTTAAAACACAAAAATTTTTGTAACAGGAGAAT
1 TTTTTTAAAACACGAAAATTTTTGAAACACGA-AAA
* * *
49972563 TTTTTTGAAAACGCGAGAATTTTTAAAAACACGAAAA
1 TTTTTT-AAAACACGAAAATTTTT-GAAACACGAAAA
*** * *
49972600 -TTTGCGAAGCACGAGAATTTTTTGAAAACACGAAAA
1 TTTTTTAAAACACGA-AAATTTTTG-AAACACGAAAA
*
49972636 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
*
49972671 TTTTTTGAAAACACGAATATTTTTGAAACACCG--AA
1 TTTTTT-AAAACACGAAAATTTTTGAAACA-CGAAAA
** *
49972706 TTTTTTTTAACACGAAAAATTTTGAAA
1 TTTTTTAAAACACGAAAATTTTTGAAA
49972733 AATGGAATTT
Statistics
Matches: 137, Mismatches: 26, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
34 17 0.12
35 30 0.22
36 56 0.41
37 28 0.20
38 6 0.04
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (35 bp):
TTTTTTAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:49972749 original size:20 final size:22
Alignment explanation
Indices: 49972724--49972765 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
49972714 AACACGAAAA
49972724 ATTTTGAA-AAATG-GAATTTT
1 ATTTTGAAGAAATGAGAATTTT
*
49972744 ATTTTGAAGACATGAGAATTTT
1 ATTTTGAAGAAATGAGAATTTT
49972766 GAAAGACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATTTTGAAGAAATGAGAATTTT
Found at i:49973351 original size:8 final size:7
Alignment explanation
Indices: 49973333--49973380 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
49973323 ACGAGCTTGA
49973333 TTTTTTC
1 TTTTTTC
49973340 TTTTTTC
1 TTTTTTC
49973347 TTTTTTC
1 TTTTTTC
49973354 TTTTTT-
1 TTTTTTC
49973360 TCTTTTTC
1 T-TTTTTC
**
49973368 TTCCTTC
1 TTTTTTC
49973375 TTTTTT
1 TTTTTT
49973381 TGGGACTGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 1 0.03
7 33 0.94
8 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:49973654 original size:6 final size:6
Alignment explanation
Indices: 49973638--49973703 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
49973628 CGACTATTAA
* * * *
49973638 TTTTTC TTTTTTC TTTTTTC TTTTTT TTCTTTC TTCTTC TTCTTC TTCTTCC
1 TTTTTC -TTTTTC -TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TT-TTTC
*
49973690 TTCTTC TTTTTC TT
1 TTTTTC TTTTTC TT
49973704 CTTCCCTCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
6 27 0.55
7 22 0.45
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:49973663 original size:9 final size:9
Alignment explanation
Indices: 49973651--49973706 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
49973641 TTCTTTTTTC
49973651 TTTT-TTCT
1 TTTTCTTCT
*
49973659 TTTTTTTCT
1 TTTTCTTCT
49973668 TTCTTCTTCT
1 TT-TTCTTCT
*
49973678 TCTTCTTCT
1 TTTTCTTCT
*
49973687 TCCTTCTTCT
1 T-TTTCTTCT
49973697 TTTTCTTCT
1 TTTTCTTCT
49973706 T
1 T
49973707 CCCTCTTCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.10
9 22 0.52
10 16 0.38
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:49973665 original size:16 final size:16
Alignment explanation
Indices: 49973644--49973707 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
49973634 TTAATTTTTC
*
49973644 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTCTTCTT
49973660 TTTTTTCTTTCTTCTT
1 TTTTTTCTTTCTTCTT
*
49973676 CTTCTTCTTCTTCCTTCTT
1 -TT-TT-TTCTTTCTTCTT
*
49973695 CTTTTTC-TTCTTC
1 TTTTTTCTTTCTTC
49973708 CCTCTTCACC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 5 0.12
16 18 0.44
17 4 0.10
18 3 0.07
19 11 0.27
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTCTTTCTTCTT
Found at i:49973674 original size:3 final size:3
Alignment explanation
Indices: 49973668--49973707 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
49973658 TTTTTTTTCT
*
49973668 TTC TTC TTC TTC TTC TTC TTCC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC
49973708 CCTCTTCACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:49973677 original size:19 final size:19
Alignment explanation
Indices: 49973638--49973706 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
49973628 CGACTATTAA
* *
49973638 TTTTTCTTTTTTCTTTTTTC
1 TTTTTCTTCTTTC-TTCTTC
*
49973658 TTTTTTTTCTTTCTTCTTC
1 TTTTTCTTCTTTCTTCTTC
* *
49973677 TTCTTCTTCTTCCTTCTTC
1 TTTTTCTTCTTTCTTCTTC
49973696 TTTTTCTTCTT
1 TTTTTCTTCTT
49973707 CCCTCTTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 31 0.74
20 11 0.26
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTCTTCTTTCTTCTTC
Found at i:49973707 original size:19 final size:19
Alignment explanation
Indices: 49973655--49973714 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
49973645 TTTTTCTTTT
* *
49973655 TTCTTTTTTTTCTTTCTTC
1 TTCTTTTTCTTCTTCCTTC
*
49973674 TTCTTCTTCTTCTTCCTTC
1 TTCTTTTTCTTCTTCCTTC
*
49973693 TTCTTTTTCTTCTTCCCTC
1 TTCTTTTTCTTCTTCCTTC
49973712 TTC
1 TTC
49973715 ACCCTAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTTTTCTTCTTCCTTC
Found at i:49974066 original size:30 final size:29
Alignment explanation
Indices: 49974050--49974207 Score: 226
Period size: 30 Copynumber: 5.2 Consensus size: 29
49974040 GGCTGAAACA
49974050 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGG-TAAAATG
*
49974080 TAATTTTGAGAAAGTTTAGGGGTCAAAATA
1 TAATTTTGAGAAAGTTTAGGGGT-AAAATG
49974110 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGG-TAAAATG
** *
49974140 TAATTTTGAGAAAGTTTAGTAGTCAAACTG
1 TAATTTTGAGAAAGTTTAGGGGT-AAAATG
49974170 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGG-TAAAATG
49974200 TAAATTTT
1 T-AATTTT
49974208 TTATTTTTTT
Statistics
Matches: 115, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
29 2 0.02
30 105 0.91
31 8 0.07
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.37
Consensus pattern (29 bp):
TAATTTTGAGAAAGTTTAGGGGTAAAATG
Found at i:49974113 original size:60 final size:60
Alignment explanation
Indices: 49974049--49974207 Score: 273
Period size: 60 Copynumber: 2.6 Consensus size: 60
49974039 GGGCTGAAAC
*
49974049 ATAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGGGGTCAAAAT
1 ATAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGGAGTCAAAAT
* *
49974109 ATAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGTAGTCAAACT
1 ATAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGGAGTCAAAAT
*
49974169 GTAATTTTGAGAAAGTTTAGGGGTTAAAATGTAAATTTT
1 ATAATTTTGAGAAAGTTTAGGGGTTAAAATGT-AATTTT
49974208 TTATTTTTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
60 88 0.94
61 6 0.06
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (60 bp):
ATAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAAGTTTAGGAGTCAAAAT
Found at i:49974591 original size:155 final size:155
Alignment explanation
Indices: 49974388--49976176 Score: 1959
Period size: 155 Copynumber: 11.6 Consensus size: 155
49974378 CAGAAATTGA
* * * * *
49974388 AAATACCTCGGCGTGTGGCCCAAGGCTCAACTCACCTCTCACAATATGAATTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
49974453 CAGAAATT-GAAAAATACCTCGACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 CAGAAATTAAAAAAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
49974517 TTTTTTGAAAATAC-GAAATTTAAAAG
130 -TTTTTGAAAAAACAGAAATTTAAAAG
* * * * *
49974543 AAATAACTTGGCATGTGACCCGAGGCTCAACTCACATCTCGCAGTATGAGTTGGTTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * * *
49974608 CAGGAATTTGAAAAAATACCTCGGCATGTGA-CCTAGGCTCAACTCACCTCTCGCATTATGAGTT
66 CA-GAAATTAAAAAAATACCTC-G-ACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
49974672 GA-TTTT-AAAAAACCAGAAATATAAAAG
128 GATTTTTGAAAAAA-CAGAAATTTAAAAG
*
49974699 AAATACCTCGGCATGTGA-CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * * *
49974763 CACAAATATAAAAGAAATACCTCGGCATGACCCGATGCTCAACTCACCTCTCGCATTATGAGTTG
66 CAGAAAT-TAAAA-AAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
49974828 ATTTTTG-AAAAACAGAAATATGAAAG
129 ATTTTTGAAAAAACAGAAATTTAAAAG
* *
49974854 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTAAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * *
49974916 CAGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTAACCTCTCGCATTATGAGTTG
66 CAGAAA-TTAAAA-AAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
49974981 A-TTTT-AAAAAACAGAAATTTAAAAG
129 ATTTTTGAAAAAACAGAAATTTAAAAG
* * *
49975006 AAAGACCTCGGCATGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * **
49975070 CAGAAATTTAAGAGAAATACCTC-AGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 CAGAAA-TTAA-AAAAATACCTCGA-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
49975134 GATTTTTTG-AAAAACATAAATTTAAAAG
128 GA-TTTTTGAAAAAACAGAAATTTAAAAG
* * *
49975162 AAATACCTCGGCATG-G-TCCGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTCGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * **
49975225 CAGAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 CAGAAA-TTAAAA-AAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
49975290 ATTTTTTTGAAAAAAAATGGAAATTTACAAG
129 A--TTTTTGAAAAAACA--GAAATTTAAAAG
* * * * *
49975321 AAATACCTCAGC--GTGACCCAAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT--GA
* * *
49975384 AAAATAGAAATT--AAAAATACCTC-AGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAG
62 AAAACAGAAATTAAAAAAATACCTCGA-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
49975446 TTGATTTTTGAAAAAAAGAGAAATTT--AA-
126 TTGATTTTTG-AAAAAACAGAAATTTAAAAG
* * *
49975474 AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A
* * *
49975537 AAAACAGAAATT--AAAAATACCTC-AGCATGACCCGAGGCTCAACTCACCTCTCGTATTATGAG
62 AAAACAGAAATTAAAAAAATACCTCGA-CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
49975599 TTGATTTTTGAAAAAAAACAGAAATTT--AA-
126 TTGATTTTTG--AAAAAACAGAAATTTAAAAG
** * *
49975628 AAATACCTTAGC--GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTAAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
49975690 CAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGT
66 CAGAAA-TTAAAA-AAATACCTC-G-ACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
49975754 TGATTTTTG-AAAAACAGAAATATAAAAG
127 TGATTTTTGAAAAAACAGAAATTTAAAAG
* * ***
49975782 AAATACCTCAGCATGTGA-CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAA
* * * *
49975846 ACAGAAATT-TAAAAGTACCTCGGGATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
65 ACAGAAATTAAAAAAATACCTC--GACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
49975910 GA-TTTTG-AAAAATAGGAATTTTAAA-
128 GATTTTTGAAAAAACAGAAATTTAAAAG
*
49975935 AAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * *
49976000 CAGAAATATAAAAGAAATACCTCGGCATGTGA-CCAAGGCTCAACTCACTTCTCGCAATATGAGT
66 CAGAAAT-TAAAA-AAATACCTC-G-ACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
49976064 TGA-TTTT-AAAAAACATAGAAATTTAAAAG
127 TGATTTTTGAAAAAAC--AGAAATTTAAAAG
* * *
49976093 ---TACCTCGGGATGTGGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTGAAAAA
1 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * *
49976154 TAGGAATTTTAAAAAATACCTCG
66 CA-GAAATTAAAAAAATACCTCG
49976177 GTATGTTAAA
Statistics
Matches: 1444, Mismatches: 123, Indels: 137
0.85 0.07 0.08
Matches are distributed among these distances:
149 11 0.01
150 2 0.00
151 18 0.01
152 36 0.02
153 280 0.19
154 319 0.22
155 449 0.31
156 122 0.08
157 46 0.03
158 41 0.03
159 102 0.07
160 2 0.00
161 4 0.00
162 2 0.00
163 10 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (155 bp):
AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAGAAATTAAAAAAATACCTCGACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAAACAGAAATTTAAAAG
Found at i:49974668 original size:77 final size:78
Alignment explanation
Indices: 49974369--49976182 Score: 2068
Period size: 77 Copynumber: 23.5 Consensus size: 78
49974359 TTTCTTTTTA
* * * * *
49974369 TTTGAAAAACAGAAA-TT--GA-AAATACCTCGGCGTGTGGCCCAAGGCTCAACTCACCTCTCAC
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGT-GACCGAGGCTCAACTCACCTCTCGC
*
49974430 AATATGAATTGATT
65 AATATGAGTTGATT
* *
49974444 TTTGAAAAACAGAAA-TT-GAA-AAATACCTC-G-ACGTGACTCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGAC-CGAGGCTCAACTCACCTCTCGC
49974504 AATATGAGTTGATTTT
65 AATATGAGTTGA--TT
* * *
49974520 TTTGAAAATAC-GAAATTTAAAAGAAATAACTTGGCATGTGACCCGAGGCTCAACTCACATCTCG
1 TTTGAAAA-ACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCG
* *
49974584 CAGTATGAGTTGGTT
64 CAATATGAGTTGATT
* * *
49974599 TTTGAAAAACAGGAATTTGAAA-AAATACCTCGGCATGTGACCTAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
*
49974663 TTATGAGTTGA-T
66 ATATGAGTTGATT
* * *
49974675 TTTAAAAAACCAGAAATATAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACTTCTCGC
1 TTTGAAAAA-CAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGC
49974740 AATATGAGTTGATT
65 AATATGAGTTGATT
* * *
49974754 TTTGAAAAACACAAATATAAAAGAAATACCTCGGCA--TGACCCGATGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGC
*
49974817 ATTATGAGTTGATT
65 AATATGAGTTGATT
* *
49974831 TTTGAAAAACAGAAATATGAAAGAAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGC
*
49974894 ATTATGAGTTGA-T
65 AATATGAGTTGATT
* *
49974907 TTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCA--TGACCCGAGGCTCAACTAACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGC
*
49974970 ATTATGAGTTGA-T
65 AATATGAGTTGATT
* * * *
49974983 TTTAAAAAACAGAAATTTAAAAGAAAGACCTCGGCATGTGTCTGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
49975048 ATATGAGTTGATT
66 ATATGAGTTGATT
* * *
49975061 TTTGAAAAACAGAAATTTAAGAGAAATACCTCAGCATG-GTCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
49975125 ATATGAGTTGATTT
66 ATATGAGTTGA-TT
* *
49975139 TTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATG-GTCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
*
49975203 ATATGACTTGATT
66 ATATGAGTTGATT
* *
49975216 TTCGAAAAACAGAAATTTAAAAGAAATACCTCGGCATG-GTCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
49975280 ATATGAGTTGATTTT
66 ATATGAGTTGA--TT
* * * *
49975295 TTTGAAAAAAAATGGAAATTTACAAGAAATACCTCAGC--GTGACCCAAGGCTCAACTCACCTCT
1 TTTG-AAAAACA--GAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCT
* *
49975358 CGTATTATGAGTTGATT
62 CGCAATATGAGTTGATT
** ** * *
49975375 TTTTTAAAA-A-AAATAGAAATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTC
1 TTTGAAAAACAGAAATTTAAA--AGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTC
* *
49975436 GTATTATGAGTTGATT
63 GCAATATGAGTTGATT
* *
49975452 TTTGAAAAAAAGAGAAATTT--AA-AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTC
1 TTTG--AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTC
* *
49975512 GTATTATGAGTTGATT
63 GCAATATGAGTTGATT
*
49975528 TTTGAAAAAAAAACAGAAA-TT--AA-AAATACCTCAGCA--TGACCCGAGGCTCAACTCACCTC
1 TTTG----AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTC
* *
49975587 TCGTATTATGAGTTGATT
61 TCGCAATATGAGTTGATT
**
49975605 TTTGAAAAAAAACAGAAATTT--AA-AAATACCTTAGC--GTGACCCGAGGCTCAACTCACCTCT
1 TTTG---AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCT
*
49975665 CGCATTATGAGTTGA-T
62 CGCAATATGAGTTGATT
* *
49975681 TTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
49975746 ATATGAGTTGATT
66 ATATGAGTTGATT
* * *
49975759 TTTGAAAAACAGAAATATAAAAGAAATACCTCAGCATGTGACCGAGGCTCAACTCACTTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
49975824 ATATGAGTTGATT
66 ATATGAGTTGATT
*** * *
49975837 TAAAAAAAAACAGAAATTTAAAAG---TACCTCGGGATGTGGCCCGAGGCTCAACTCACCTCTCG
1 T-TTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGT-GACCGAGGCTCAACTCACCTCTCG
49975899 CAATATGAGTTGA-T
64 CAATATGAGTTGATT
* * * *
49975913 TTTGAAAAATAGGAATTTTAAA-AAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGC
49975977 AATATGAGTTGATT
65 AATATGAGTTGATT
* * *
49975991 TTTGAAAAACAGAAATATAAAAGAAATACCTCGGCATGTGACCAAGGCTCAACTCACTTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
49976056 ATATGAGTTGA-T
66 ATATGAGTTGATT
* * *
49976068 TTTAAAAAACATAGAAATTTAAAAG---TACCTCGGGATGTGGCCCGAGGCTCAACTCACCTCTC
1 TTTGAAAAAC--AGAAATTTAAAAGAAATACCTCGGCATGT-GACCGAGGCTCAACTCACCTCTC
*
49976130 GCAATATGAGTT-AAT
63 GCAATATGAGTTGATT
* * * *
49976145 TTTGAAAAATAGGAATTTTAAA-AAATACCTCGGTATGT
1 TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGT
49976183 TAAAAAATAC
Statistics
Matches: 1556, Mismatches: 124, Indels: 116
0.87 0.07 0.06
Matches are distributed among these distances:
73 16 0.01
74 33 0.02
75 51 0.03
76 257 0.17
77 644 0.41
78 349 0.22
79 96 0.06
80 14 0.01
81 41 0.03
82 55 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (78 bp):
TTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATT
Found at i:49974817 original size:232 final size:232
Alignment explanation
Indices: 49974369--49976177 Score: 2066
Period size: 232 Copynumber: 7.8 Consensus size: 232
49974359 TTTCTTTTTA
* * * * * *
49974369 TTTGAAAAACAGAAA-TT-GA-AAATACCTCGGCGTGTGGCCCAAGGCTCAACTCACCTCTCACA
1 TTTGAAAAACAGAAATTTAAAGAAATACCTCAGCATGT-GACCGAGGCTCAACTCACCTCTCGCA
* * * *
49974431 ATATGAATTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTC-G-ACGTGACTCGAGGCTCA
65 ATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGAC-CGAGGCTCA
* *
49974491 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAC-GAAATTTAAAAGAAATAACTTGGC
129 ACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-ACAGAAATTTAAAAGAAATACCTCGGC
* * *
49974555 ATGTGACCCGAGGCTCAACTCACATCTCGCAGTATGAGTTGGTT
191 A--TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * *
49974599 TTTGAAAAACAGGAATTTGAAA-AAATACCTCGGCATGTGACCTAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTT-AAAGAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCA
* *
49974663 TTATGAGTTGA-TTTTAAAAAACCAGAAATATAAAAGAAATACCTCGGCATGTGACCGAGGCTCA
65 ATATGAGTTGATTTTTAAAAAA-CAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCA
* * *
49974727 ACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACACAAATATAAAAGAAATACCTCGGCATG
129 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATG
* *
49974792 ACCCGATGCTCAACTCACCTCTCGCATTATGAGTTGATT
194 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
49974831 TTTGAAAAACAGAAATATGAAAGAAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAAT-TTAAAGAAATACCTCAGCATGTGA-CCGAGGCTCAACTCACCTCTCGC
*
49974894 ATTATGAGTTGA-TTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCA--TGACCCGAGGCTC
64 AATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCGAGGCTC
* * * *
49974956 AACTAACCTCTCGCATTATGAGTTGA-TTTTAAAAAACAGAAATTTAAAAGAAAGACCTCGGCAT
128 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCAT
** *
49975020 GTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
193 G-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
49975061 TTTGAAAAACAGAAATTTAAGAGAAATACCTCAGCATG-GTCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAA-AGAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCA
* * *
49975125 ATATGAGTTGATTTTTTGAAAAACATAAATTTAAAAGAAATACCTCGGCATG-GTCCGAGGCTCA
65 ATATGAGTTGA-TTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCA
* *
49975189 ACTCACCTCTCGCAATATGACTTGATTTTCGAAAAACAGAAATTTAAAAGAAATACCTCGGCATG
129 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATG
**
49975254 GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
194 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* *
49975295 TTTGAAAAAAAATGGAAATTTACAAGAAATACCTCAGC--GTGACCCAAGGCTCAACTCACCTCT
1 TTTG-AAAAACA--GAAATTTA-AAGAAATACCTCAGCATGTGA-CCGAGGCTCAACTCACCTCT
* * * *
49975358 CGTATTATGAGTTGATTTTTTTAAAAAAAATAGAAA-TT--AA-AAATACCTCAGC--GTGACCC
61 CGCAATATGAGTTGA--TTTTT--AAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CC
* * *
49975417 GAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAGAGAAATTT--AA-AAATA
121 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAAAACAGAAATTTAAAAGAAATA
* * * *
49975479 CCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATT
184 CCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
49975528 TTTGAAAAAAAAACAGAAA-TT-AA-AAATACCTCAGCA--TGACCCGAGGCTCAACTCACCTCT
1 TTTG----AAAAACAGAAATTTAAAGAAATACCTCAGCATGTGA-CCGAGGCTCAACTCACCTCT
* * **
49975588 CGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTT--AA-AAATACCTTAGC--GTGACCCG
61 CGCAATATGAGTTGATTTTT---AAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA-CCG
* *
49975648 AGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTAAAAAACAGAAATTTAAAAGAAATACCT
122 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
**
49975712 CGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
187 CGGCATG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
49975759 TTTGAAAAACAGAAATATAAAAGAAATACCTCAGCATGTGACCGAGGCTCAACTCACTTCTCGCA
1 TTTGAAAAACAGAAAT-TTAAAGAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCA
** * *
49975824 ATATGAGTTGATTTAAAAAAAAACAGAAATTTAAAAG---TACCTCGGGATGTGGCCCGAGGCTC
65 ATATGAGTTGATTT-TTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGT-GACCGAGGCTC
* * * *
49975886 AACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAATAGGAATTTTAAA-AAATACCTCGGTAT
128 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCA-
49975949 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
192 -TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * *
49975991 TTTGAAAAACAGAAATATAAAAGAAATACCTCGGCATGTGACCAAGGCTCAACTCACTTCTCGCA
1 TTTGAAAAACAGAAAT-TTAAAGAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCA
* *
49976056 ATATGAGTTGA-TTTTAAAAAACATAGAAATTTAAAAG---TACCTCGGGATGTGGCCCGAGGCT
65 ATATGAGTTGATTTTTAAAAAAC--AGAAATTTAAAAGAAATACCTCGGCATGT-GACCGAGGCT
* * * *
49976117 CAACTCACCTCTCGCAATATGAGTT-AATTTTGAAAAATAGGAATTTTAAA-AAATACCTCGG
127 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGG
49976178 TATGTTAAAA
Statistics
Matches: 1406, Mismatches: 107, Indels: 130
0.86 0.07 0.08
Matches are distributed among these distances:
227 24 0.02
228 5 0.00
229 61 0.04
230 291 0.21
231 110 0.08
232 539 0.38
233 84 0.06
234 44 0.03
235 63 0.04
236 92 0.07
237 62 0.04
238 20 0.01
239 2 0.00
240 9 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (232 bp):
TTTGAAAAACAGAAATTTAAAGAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGAC
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
Found at i:49976205 original size:20 final size:20
Alignment explanation
Indices: 49976156--49976206 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
49976146 TTGAAAAATA
49976156 GGAATTTTAAAAAATACCTC
1 GGAATTTTAAAAAATACCTC
* *
49976176 GGTATGTTAAAAAATACCTC
1 GGAATTTTAAAAAATACCTC
49976196 GGAATTTTAAA
1 GGAATTTTAAA
49976207 GAAACAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
GGAATTTTAAAAAATACCTC
Found at i:49976491 original size:19 final size:18
Alignment explanation
Indices: 49976444--49976491 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
49976434 CGCATTCATT
**
49976444 TCCTCAAGTTTTGACTTT
1 TCCTCAAGTTTTGACTCA
*
49976462 TCTCTCCAGTTTTGTACTCA
1 TC-CTCAAGTTTTG-ACTCA
49976482 TCCTCAAGTT
1 TCCTCAAGTT
49976492 CTGTGAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.71
20 5 0.21
ACGTcount: A:0.17, C:0.27, G:0.10, T:0.46
Consensus pattern (18 bp):
TCCTCAAGTTTTGACTCA
Found at i:49977062 original size:10 final size:9
Alignment explanation
Indices: 49977047--49977088 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
49977037 TTCATCTTGA
49977047 TTTTTTTGT
1 TTTTTTTGT
*
49977056 GTTTTTT-T
1 TTTTTTTGT
*
49977064 TTGTTTTGT
1 TTTTTTTGT
49977073 TTTTTTTGT
1 TTTTTTTGT
49977082 TTTTTTT
1 TTTTTTT
49977089 AGGCATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:49977080 original size:14 final size:13
Alignment explanation
Indices: 49977047--49977088 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
49977037 TTCATCTTGA
*
49977047 TTTTTTTG-TGTT
1 TTTTTTTGTTTTT
49977059 TTTTTTTGTTTTGT
1 TTTTTTTGTTTT-T
49977073 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
49977086 TTT
1 TTT
49977089 AGGCATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.30
13 6 0.22
14 13 0.48
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:49983122 original size:55 final size:55
Alignment explanation
Indices: 49983042--49983347 Score: 187
Period size: 55 Copynumber: 5.5 Consensus size: 55
49983032 AACATGAGAA
* ** * * *
49983042 TTTTTTTGAAACACGAAAACTTTTG-AAATACGAGAATTTTAAG-AACACGAAAATT
1 TTTTTTTAAAACACGAAATTTTTTGAAAACACGAAAATTTT-AGTAACAAGAAAA-T
* *
49983097 TTTTTTTAAAACACGAAATTTTTTGAAAACACGAAAATTTTTGTAACAAGAGAAT
1 TTTTTTTAAAACACGAAATTTTTTGAAAACACGAAAATTTTAGTAACAAGAAAAT
* * * * * * *
49983152 TTTTTTGAAAACACGAGGATTTTTTTTGAAAACACAAAAATTGGT-GAAACACGAGAAT
1 TTTTTTTAAAACACGA--A-ATTTTTTGAAAACACGAAAATT-TTAGTAACAAGAAAAT
* * * ** * *
49983210 TTTTTTGAAAACGCGAGAA-TTTTTAAAAACACGAAAATTTGCG-AAGCACGAGAA-
1 TTTTTTTAAAACACGA-AATTTTTTGAAAACACGAAAATTTTAGTAA-CAAGAAAAT
* * * * *
49983264 TTTTTTGAAAACACGAAAATTTTTT-AAAACACGAAAAGTTTTTGAAACACGGAAA-
1 TTTTTTTAAAACACG-AAATTTTTTGAAAACACGAAAA-TTTTAGTAACAAGAAAAT
* * **
49983319 TATTTTGAAAACACGAAAAATTTTGAAAA
1 TTTTTTTAAAACACGAAATTTTTTGAAAA
49983348 ATTGAATTTT
Statistics
Matches: 210, Mismatches: 28, Indels: 26
0.80 0.11 0.10
Matches are distributed among these distances:
54 37 0.18
55 100 0.48
56 23 0.11
57 3 0.01
58 46 0.22
59 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (55 bp):
TTTTTTTAAAACACGAAATTTTTTGAAAACACGAAAATTTTAGTAACAAGAAAAT
Found at i:49983138 original size:37 final size:37
Alignment explanation
Indices: 49983085--49983347 Score: 198
Period size: 37 Copynumber: 7.1 Consensus size: 37
49983075 GAATTTTAAG
49983085 AACACGAAAATTTTTTTTTAAAACACGAAATTTTTTGAA
1 AACACGAAAA--TTTTTTTAAAACACGAAATTTTTTGAA
* * *
49983124 AACACGAAAATTTTTGTAACAAGA-GAATTTTTTTGAA
1 AACACGAAAATTTTTTTAA-AACACGAAATTTTTTGAA
* * * * **
49983161 AACACGAGGATTTTTTTTGAAAACACAAAAATTGGTG-A
1 AACACGA-AAATTTTTTT-AAAACACGAAATTTTTTGAA
* * *
49983199 AACACGAGAATTTTTTTGAAAACGCGAGAA-TTTTTAAA
1 AACACGAAAATTTTTTT-AAAACACGA-AATTTTTTGAA
*** *
49983237 AACACGAAAA--TTTGCGAAGCACGAGAATTTTTTGAA
1 AACACGAAAATTTTTTTAAAACACGA-AATTTTTTGAA
*
49983273 AACACGAAAA-TTTTTTAAAACACGAAAAGTTTTTG-A
1 AACACGAAAATTTTTTTAAAACACG-AAATTTTTTGAA
* * * **
49983309 AACACGGAAATATTTTGAAAACACGAAAAATTTTGAA
1 AACACGAAAATTTTTTTAAAACACGAAATTTTTTGAA
49983346 AA
1 AA
49983348 ATTGAATTTT
Statistics
Matches: 178, Mismatches: 35, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
35 9 0.05
36 38 0.21
37 79 0.44
38 34 0.19
39 18 0.10
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (37 bp):
AACACGAAAATTTTTTTAAAACACGAAATTTTTTGAA
Found at i:49983341 original size:18 final size:18
Alignment explanation
Indices: 49983044--49983347 Score: 210
Period size: 18 Copynumber: 16.6 Consensus size: 18
49983034 CATGAGAATT
49983044 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
49983061 CTTTTG-AAATACGAGAA
1 TTTTTGAAAACACGAAAA
49983078 -TTTT-AAGAACACGAAAA
1 TTTTTGAA-AACACGAAAA
* *
49983095 TTTTTTTTTAAAACACGAAAT
1 ---TTTTTGAAAACACGAAAA
49983116 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
49983134 TTTTTGTAACAAGA-GAATT
1 TTTTTG-AA-AACACGAAAA
**
49983153 TTTTTGAAAACACGAGGATTT
1 TTTTTGAAAACACGA--A-AA
*
49983174 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
** *
49983192 TTGGTG-AAACACGAGAATT
1 TTTTTGAAAACACGA-AA-A
* *
49983211 TTTTTGAAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
*
49983229 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
** * *
49983247 TTTGCG-AAGCACGAGAAT
1 TTTTTGAAAACACGA-AAA
49983265 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
49983283 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
49983301 GTTTTTG-AAACACGGAAA
1 -TTTTTGAAAACACGAAAA
49983319 TATTTTGAAAACACGAAAA
1 T-TTTTGAAAACACGAAAA
*
49983338 ATTTTGAAAA
1 TTTTTGAAAA
49983348 ATTGAATTTT
Statistics
Matches: 225, Mismatches: 41, Indels: 41
0.73 0.13 0.13
Matches are distributed among these distances:
16 5 0.02
17 40 0.18
18 99 0.44
19 39 0.17
20 11 0.05
21 29 0.13
22 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:49983798 original size:5 final size:5
Alignment explanation
Indices: 49983788--49983814 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
49983778 TTATTTATTA
49983788 AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
49983815 CATAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:49983959 original size:7 final size:7
Alignment explanation
Indices: 49983947--49983989 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
49983937 ACGAGCTTGA
49983947 TTTTTTC
1 TTTTTTC
49983954 TTTTTTC
1 TTTTTTC
49983961 TTTTTTTTC
1 --TTTTTTC
49983970 TTTTTTC
1 TTTTTTC
**
49983977 TTCCTTC
1 TTTTTTC
49983984 TTTTTT
1 TTTTTT
49983990 TTGGACTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 23 0.77
9 7 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:49983968 original size:16 final size:16
Alignment explanation
Indices: 49983947--49983978 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49983937 ACGAGCTTGA
49983947 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTTCTT
49983963 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTTCTT
49983979 CCTTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTT
Found at i:49983977 original size:23 final size:23
Alignment explanation
Indices: 49983947--49983991 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49983937 ACGAGCTTGA
**
49983947 TTTTTTCTTTTTTCTTTTTTTTC
1 TTTTTTCTTCCTTCTTTTTTTTC
49983970 TTTTTTCTTCCTTCTTTTTTTT
1 TTTTTTCTTCCTTCTTTTTTTT
49983992 GGACTGGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTCTTCCTTCTTTTTTTTC
Found at i:49984124 original size:24 final size:25
Alignment explanation
Indices: 49984077--49984137 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
49984067 GCTGCTGTGA
**
49984077 TGGGCCTGCTGGCCTGCCAAGCTGT
1 TGGGCCTATTGGCCTGCCAAGCTGT
49984102 TGGG-CTATTGGCCTG-CAAGGCTGT
1 TGGGCCTATTGGCCTGCCAA-GCTGT
49984126 TGGGCCTATTGG
1 TGGGCCTATTGG
49984138 GCAGCTACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 3 0.09
24 18 0.56
25 11 0.34
ACGTcount: A:0.10, C:0.25, G:0.38, T:0.28
Consensus pattern (25 bp):
TGGGCCTATTGGCCTGCCAAGCTGT
Found at i:49984280 original size:7 final size:7
Alignment explanation
Indices: 49984268--49984320 Score: 61
Period size: 7 Copynumber: 6.9 Consensus size: 7
49984258 CCGACTATTA
49984268 ATTTTTC
1 ATTTTTC
49984275 ATTTTTC
1 ATTTTTC
49984282 ATTTTTTTTC
1 A---TTTTTC
49984292 ATTTTTTC
1 A-TTTTTC
49984300 ATTTTTTC
1 A-TTTTTC
49984308 ATTTTTC
1 ATTTTTC
49984315 ATTTTT
1 ATTTTT
49984321 TTTCTTTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.47
8 16 0.37
10 7 0.16
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTTTC
Found at i:49984287 original size:8 final size:8
Alignment explanation
Indices: 49984269--49984321 Score: 74
Period size: 8 Copynumber: 6.6 Consensus size: 8
49984259 CGACTATTAA
49984269 TTTTTCA-
1 TTTTTCAT
49984276 TTTTTCATTT
1 TTTTTCA--T
49984286 TTTTTCAT
1 TTTTTCAT
49984294 TTTTTCAT
1 TTTTTCAT
49984302 TTTTTCA-
1 TTTTTCAT
49984309 TTTTTCAT
1 TTTTTCAT
49984317 TTTTT
1 TTTTT
49984322 TTCTTTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.33
8 21 0.50
10 7 0.17
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:49984309 original size:33 final size:32
Alignment explanation
Indices: 49984269--49984340 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
49984259 CGACTATTAA
49984269 TTTTTCATTTTTCATTTTTTTTCATTT-TTTCAT
1 TTTTTCATTTTTCATTTTTTTTC-TTTCTTTC-T
49984302 TTTTTCATTTTTCATTTTTTTTCTTTCTTTCT
1 TTTTTCATTTTTCATTTTTTTTCTTTCTTTCT
49984334 TTCTTTC
1 TT-TTTC
49984341 TTTCTTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 6 0.16
33 31 0.84
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTTCATTTTTCATTTTTTTTCTTTCTTTCT
Found at i:49984328 original size:4 final size:4
Alignment explanation
Indices: 49984321--49984350 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
49984311 TTTCATTTTT
49984321 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
49984351 CTTCTTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:49984354 original size:3 final size:3
Alignment explanation
Indices: 49984346--49984375 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
49984336 CTTTCTTTCT
49984346 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
49984376 CCTCTTCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:49984738 original size:30 final size:30
Alignment explanation
Indices: 49984722--49984878 Score: 253
Period size: 30 Copynumber: 5.2 Consensus size: 30
49984712 GGCTAAAACA
*
49984722 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
* *
49984752 TAATTTTGAGAAATTTTAAGGGTCAAAA-G
1 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
*
49984781 ATAATTTTAAGAAAGTTTAGGGGTCAAAATG
1 -TAATTTTGAGAAAGTTTAGGGGTCAAAATG
*
49984812 TAATTTTGAGAAAGTTTAGTGGTCAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
49984842 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
49984872 TAATTTT
1 TAATTTT
49984879 TTGATTTTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
29 1 0.01
30 114 0.98
31 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (30 bp):
TAATTTTGAGAAAGTTTAGGGGTCAAAATG
Found at i:49984894 original size:9 final size:8
Alignment explanation
Indices: 49984874--49984905 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
49984864 TCAAAATGTA
49984874 ATTTTTTG
1 ATTTTTTG
49984882 ATTTTTTG
1 ATTTTTTG
49984890 TATTTTTTG
1 -ATTTTTTG
49984899 ATTTTTT
1 ATTTTTT
49984906 TTAAAACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (8 bp):
ATTTTTTG
Found at i:49987237 original size:22 final size:22
Alignment explanation
Indices: 49987190--49987234 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
49987180 ATGCAATCTT
*
49987190 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
49987212 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
49987235 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:49991028 original size:22 final size:21
Alignment explanation
Indices: 49990997--49991043 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
49990987 TAGTAGGTAC
*
49990997 CTAAATGCAAATCACTAAGCA
1 CTAAATGCAAAACACTAAGCA
* *
49991018 CTAAAGTGCAAAACAGTAGGCA
1 CTAAA-TGCAAAACACTAAGCA
49991040 CTAA
1 CTAA
49991044 GCACTGAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (21 bp):
CTAAATGCAAAACACTAAGCA
Found at i:49991053 original size:29 final size:29
Alignment explanation
Indices: 49991009--49991070 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
49990999 AAATGCAAAT
49991009 CACTAAGCACTAAAGTGCAAAACAGTAGG
1 CACTAAGCACTAAAGTGCAAAACAGTAGG
*
49991038 CACTAAGCACTGAAGTGCAAAACAGTAGG
1 CACTAAGCACTAAAGTGCAAAACAGTAGG
49991067 CACT
1 CACT
49991071 GAAGTGTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (29 bp):
CACTAAGCACTAAAGTGCAAAACAGTAGG
Found at i:49996304 original size:12 final size:12
Alignment explanation
Indices: 49996287--49996311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49996277 AGTTTAGTTT
49996287 AAAATTAACACG
1 AAAATTAACACG
49996299 AAAATTAACACG
1 AAAATTAACACG
49996311 A
1 A
49996312 GTCAAGGGGC
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATTAACACG
Found at i:49999825 original size:26 final size:25
Alignment explanation
Indices: 49999796--49999844 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
49999786 ACATCAATCC
49999796 ATTCACATTAAAAGTAACA-TAATAAA
1 ATTCA-ATTAAAA-TAACATTAATAAA
*
49999822 ATTCAATTTAAATAACATTAATA
1 ATTCAATTAAAATAACATTAATA
49999845 CGATAATCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 11 0.52
26 5 0.24
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (25 bp):
ATTCAATTAAAATAACATTAATAAA
Found at i:50003763 original size:15 final size:15
Alignment explanation
Indices: 50003743--50003771 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50003733 ATGCTTCACA
50003743 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
50003758 CACCGTGTTATCAA
1 CACCGTGTTATCAA
50003772 GCAACAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:50004482 original size:25 final size:25
Alignment explanation
Indices: 50004453--50004502 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
50004443 AACAAAGGTA
50004453 AGTGCCCACAAATCCTATGGCATGC
1 AGTGCCCACAAATCCTATGGCATGC
50004478 AGTGCCCACAAATCCTATGGCATGC
1 AGTGCCCACAAATCCTATGGCATGC
50004503 CAACTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (25 bp):
AGTGCCCACAAATCCTATGGCATGC
Found at i:50006699 original size:3 final size:3
Alignment explanation
Indices: 50006691--50006794 Score: 208
Period size: 3 Copynumber: 34.7 Consensus size: 3
50006681 GTGAGGTAAG
50006691 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50006739 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50006787 TAT TAT TA
1 TAT TAT TA
50006795 AGATGAGTGG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 101 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:50007611 original size:20 final size:20
Alignment explanation
Indices: 50007586--50007624 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50007576 GGTAATACCA
50007586 CTGAGTATGAAATACTCAGC
1 CTGAGTATGAAATACTCAGC
50007606 CTGAGTATGAAATACTCAG
1 CTGAGTATGAAATACTCAG
50007625 TGTACGGTTG
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:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
CTGAGTATGAAATACTCAGC
Found at i:50009381 original size:36 final size:36
Alignment explanation
Indices: 50009334--50009488 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
50009324 GCTAAGCTAC
50009334 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
50009370 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
50009412 CTACCACTTATCACTTTGTCTCTTGATTAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
50009452 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
50009488 C
1 C
50009489 TAAAGCTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 63 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:50009421 original size:46 final size:46
Alignment explanation
Indices: 50009370--50009524 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
50009360 ATAAGTATAG
50009370 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
50009416 CACTTATCACTTTGTCTCTTGATTAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
50009452 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
50009498 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
50009525 AGTACTCAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
36 27 0.30
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 52 0.57
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:50009429 original size:82 final size:82
Alignment explanation
Indices: 50009291--50009524 Score: 393
Period size: 82 Copynumber: 2.9 Consensus size: 82
50009281 TACGTATGAT
* * *
50009291 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50009353 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
50009370 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
* *
50009435 TGATTAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
50009452 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50009517 TGATCAGA
66 TGATCAGA
50009525 AGTACTCAAA
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
79 9 0.06
80 5 0.03
81 20 0.14
82 111 0.77
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:50016449 original size:23 final size:23
Alignment explanation
Indices: 50016423--50016475 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
50016413 ATAAGTGCCA
50016423 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
50016446 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50016469 CACTGAT
1 CACTGAT
50016476 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:50016957 original size:30 final size:30
Alignment explanation
Indices: 50016922--50016980 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
50016912 TCCTTGACTC
50016922 AAAC-TTTGTCAAAATTACAATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAATTTTGCCCCT
* * *
50016952 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTTGCAAAATTACAATTTTGCCCC
50016981 AAAGCTCGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:50019952 original size:36 final size:36
Alignment explanation
Indices: 50019905--50020058 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
50019895 GCTAAGCTAC
50019905 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
50019941 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
50019983 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
50020023 CACTTATCACTTT-TCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
50020058 C
1 C
50020059 TAAAGCTACC
Statistics
Matches: 103, Mismatches: 5, Indels: 21
0.80 0.04 0.16
Matches are distributed among these distances:
35 22 0.21
36 42 0.41
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:50019992 original size:46 final size:46
Alignment explanation
Indices: 50019941--50020094 Score: 186
Period size: 46 Copynumber: 3.6 Consensus size: 46
50019931 ATAAGTATAG
50019941 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
50019987 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
50020023 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
50020068 CACTGATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
50020095 AGTACTCAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
35 17 0.19
36 10 0.11
37 2 0.02
38 1 0.01
39 1 0.01
40 2 0.02
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 9 0.10
46 42 0.47
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:50020000 original size:82 final size:82
Alignment explanation
Indices: 50019862--50020094 Score: 384
Period size: 81 Copynumber: 2.9 Consensus size: 82
50019852 TACGTATGAT
* * *
50019862 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50019924 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
50019941 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
50020006 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* *
50020023 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTGATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
50020087 TGATCAGA
66 TGATCAGA
50020095 AGTACTCAAA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
79 9 0.06
80 5 0.03
81 80 0.55
82 51 0.35
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:50020050 original size:35 final size:36
Alignment explanation
Indices: 50019987--50020058 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
50019977 CTAAAGCTAC
*
50019987 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
50020023 CACTTATCACTTT-TCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
50020058 C
1 C
50020059 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:50024744 original size:24 final size:24
Alignment explanation
Indices: 50024712--50024760 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50024702 TTAATTATCC
*
50024712 TTTAATATAAGAATATTTTGATAT
1 TTTAATATAAGAATATTTTAATAT
50024736 TTTAATATAAGAATATTTTAATAT
1 TTTAATATAAGAATATTTTAATAT
50024760 T
1 T
50024761 AACTTAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTAATATAAGAATATTTTAATAT
Found at i:50035316 original size:5 final size:5
Alignment explanation
Indices: 50035306--50035337 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
50035296 CTTGTTGTTT
50035306 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GT
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GT
50035338 GTTTGAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (5 bp):
GTTGG
Found at i:50043955 original size:7 final size:7
Alignment explanation
Indices: 50043943--50043967 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50043933 ACTGTTCAAA
50043943 ACTGGAC
1 ACTGGAC
50043950 ACTGGAC
1 ACTGGAC
50043957 ACTGGAC
1 ACTGGAC
50043964 ACTG
1 ACTG
50043968 AAACTTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (7 bp):
ACTGGAC
Found at i:50048114 original size:12 final size:12
Alignment explanation
Indices: 50048097--50048122 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50048087 CAAAACAGGC
50048097 TTTTAGCGGCGT
1 TTTTAGCGGCGT
50048109 TTTTAGCGGCGT
1 TTTTAGCGGCGT
50048121 TT
1 TT
50048123 CGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:50048261 original size:38 final size:39
Alignment explanation
Indices: 50048129--50048261 Score: 130
Period size: 39 Copynumber: 3.4 Consensus size: 39
50048119 GTTTCGACAA
* * * *
50048129 AAAATGCCACTAAGAATCAAGCATTAGCGGCACTTTTAT--
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTT-TCG
** * *
50048168 AAAACGCCGCTAAAGGTTTAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAA-AATAAGCATTAGCGGCGCTTTTTCG
50048208 AAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTTCG
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTCG
50048246 AAAAGCGCCGC-AAAAA
1 AAAA-CGCCGCTAAAAA
50048262 GCCTAAGCCC
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
38 16 0.20
39 48 0.61
40 15 0.19
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTCG
Found at i:50048394 original size:40 final size:41
Alignment explanation
Indices: 50048302--50048415 Score: 151
Period size: 40 Copynumber: 2.8 Consensus size: 41
50048292 TTTTGAGGCA
** * *
50048302 TTTAGCGGTATTTTTGAAAAAGCGCCACTAATGCTTGGGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATACTTCGGCC
50048343 TTTAGCGGCGTTTTT-ATAAAAGCGCCACTAATAC-TCGGCC
1 TTTAGCGGCGTTTTTGA-AAAAGCGCCACTAATACTTCGGCC
* *
50048383 TTTAGCGGCGTTTTTGAAAAAACGCCGCTAATA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATA
50048416 ATAATAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
40 35 0.54
41 30 0.46
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATACTTCGGCC
Found at i:50048963 original size:15 final size:15
Alignment explanation
Indices: 50048943--50048978 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
50048933 CATGAACTTC
50048943 GATTTTCATTCTTGG
1 GATTTTCATTCTTGG
50048958 GATTTTCATTCTTGG
1 GATTTTCATTCTTGG
*
50048973 AATTTT
1 GATTTT
50048979 TGTGAGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (15 bp):
GATTTTCATTCTTGG
Found at i:50050683 original size:34 final size:36
Alignment explanation
Indices: 50050637--50050792 Score: 172
Period size: 41 Copynumber: 4.1 Consensus size: 36
50050627 TAATTTAACA
* * *
50050637 GATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCT
1 GATTCATCGGCACTTAGCCTGCTAGGTTTATAACCT
*
50050673 GATTC-T-GGCACTTAACCTGCTAGGTTTATAACCT
1 GATTCATCGGCACTTAGCCTGCTAGGTTTATAACCT
50050707 GATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCT
1 GATTC--AT---CGGCACTTAGCCTGCTAGGTTTATAACCT
50050748 GATTCAGATCATCGGCACTTAGCCTGCTAGGTTTATAACCT
1 GA-T----TCATCGGCACTTAGCCTGCTAGGTTTATAACCT
50050789 GATT
1 GATT
50050793 TAGATCACCG
Statistics
Matches: 103, Mismatches: 5, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
34 30 0.29
36 6 0.06
37 1 0.01
40 1 0.01
41 60 0.58
42 1 0.01
44 2 0.02
46 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (36 bp):
GATTCATCGGCACTTAGCCTGCTAGGTTTATAACCT
Done.