Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 66 of 279
Found at i:22005072 original size:43 final size:43
Alignment explanation
Indices: 22004999--22005093 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
22004989 GTGACATAGT
* * * *
22004999 CCAGACTGTGTGGGTATTTGAAGCAGGGACACACAGTTGTGTC
1 CCAGCCTGTGTGGGTATTCGAAGCAAGGACACACAGCTGTGTC
* **
22005042 CCAGCCTGTGTGGGTATTCGAAGTAAGGACACATGGCTGTGTC
1 CCAGCCTGTGTGGGTATTCGAAGCAAGGACACACAGCTGTGTC
22005085 CCAGCCTGT
1 CCAGCCTGT
22005094 ATGTCTATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (43 bp):
CCAGCCTGTGTGGGTATTCGAAGCAAGGACACACAGCTGTGTC
Found at i:22006387 original size:29 final size:29
Alignment explanation
Indices: 22006355--22006434 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 29
22006345 TTCAGATACT
* * *
22006355 TGTATCTGGCCCACTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
22006384 TGTATATGGCCCATTAGACCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
22006413 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
22006435 GTCACATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:22008344 original size:46 final size:46
Alignment explanation
Indices: 22008284--22008603 Score: 507
Period size: 46 Copynumber: 7.0 Consensus size: 46
22008274 TTTGACATGA
* * * * *
22008284 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
22008330 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
22008376 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
22008422 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * **
22008468 TGCCATGGTGTCTTTCAACCATGGGCTTACATGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
22008514 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
22008560 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
22008604 AGAGCACACT
Statistics
Matches: 256, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 252 0.98
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:22011099 original size:30 final size:30
Alignment explanation
Indices: 22011032--22011099 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
22011022 CACCCTTAAA
* * *
22011032 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
22011062 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
22011091 AGTATTTAC
1 A-TATTTAC
22011100 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:22017752 original size:5 final size:5
Alignment explanation
Indices: 22017742--22017774 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
22017732 CTGTGTGTTC
22017742 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
22017775 CACAGATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:22025819 original size:46 final size:48
Alignment explanation
Indices: 22025747--22025851 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 48
22025737 GACAGGATAG
* * *
22025747 GACAGAAATGAGCCATGTAAGTCCATATCAG-T-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
*
22025793 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAG--ATATATATGGCATTGGA
22025843 GACAGGAAT
1 GACAGGAAT
22025852 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 28 0.55
49 1 0.02
50 22 0.43
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
Found at i:22037384 original size:35 final size:35
Alignment explanation
Indices: 22037345--22037415 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
22037335 CCAGAGTCAG
* * *
22037345 GGAAAGAATTCACTGTCTACAGTGATGCGTCACAT
1 GGAAAGAATTCACCGTCTACAGCGATGCATCACAT
* *
22037380 GGAAAGAGTTCACCGTCTATAGCGATGCATCACAT
1 GGAAAGAATTCACCGTCTACAGCGATGCATCACAT
22037415 G
1 G
22037416 TTGGGCTGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (35 bp):
GGAAAGAATTCACCGTCTACAGCGATGCATCACAT
Found at i:22044093 original size:29 final size:29
Alignment explanation
Indices: 22043985--22044103 Score: 107
Period size: 29 Copynumber: 4.2 Consensus size: 29
22043975 CATATACCTG
* * *
22043985 TATATGGCCCACTAGACCCAACT-ATATT
1 TATATGGCCCACTAGGCCCAAATCACATT
* * ** *
22044013 CACATGGCCCGTTAGGCCCAAACCACATT
1 TATATGGCCCACTAGGCCCAAATCACATT
** *
22044042 TATATGGCCCTTTAGACCCAAATCACATT
1 TATATGGCCCACTAGGCCCAAATCACATT
* *
22044071 TATGTGGCCCACTAGGCCCAAATCGCA-T
1 TATATGGCCCACTAGGCCCAAATCACATT
22044099 TATAT
1 TATAT
22044104 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
28 21 0.30
29 50 0.70
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
TATATGGCCCACTAGGCCCAAATCACATT
Found at i:22044328 original size:8 final size:8
Alignment explanation
Indices: 22044315--22044357 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
22044305 GTAGCCAAAC
22044315 TTTCGGCT
1 TTTCGGCT
*
22044323 TTTCGGCA
1 TTTCGGCT
*
22044331 TTTCAGCT
1 TTTCGGCT
* *
22044339 TTTTGGCA
1 TTTCGGCT
22044347 TTTCGGCT
1 TTTCGGCT
22044355 TTT
1 TTT
22044358 GCTGATCTAC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:22044339 original size:16 final size:16
Alignment explanation
Indices: 22044315--22044357 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
22044305 GTAGCCAAAC
22044315 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
* *
22044331 TTTCAGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
22044347 TTTCGGCTTTT
1 TTTCGGCTTTT
22044358 GCTGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:22047694 original size:27 final size:27
Alignment explanation
Indices: 22047662--22047713 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
22047652 ATTACTTATT
22047662 ACTTGAACGGTTTTCTAAAAGCAACAC
1 ACTTGAACGGTTTTCTAAAAGCAACAC
22047689 ACTTGAACGGTTTTCTAAAAGCAAC
1 ACTTGAACGGTTTTCTAAAAGCAAC
22047714 GTTTTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (27 bp):
ACTTGAACGGTTTTCTAAAAGCAACAC
Found at i:22054342 original size:27 final size:27
Alignment explanation
Indices: 22054312--22054370 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
22054302 AATATACATC
22054312 TTACCCTACAGGGGTATTTCGATCATT
1 TTACCCTACAGGGGTATTTCGATCATT
22054339 TTACCCTACAGGGGTATTTCGATCATT
1 TTACCCTACAGGGGTATTTCGATCATT
22054366 TTACC
1 TTACC
22054371 TATTTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (27 bp):
TTACCCTACAGGGGTATTTCGATCATT
Found at i:22055802 original size:20 final size:20
Alignment explanation
Indices: 22055777--22055821 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
22055767 ATTCCTCCAA
22055777 CAACTCCTCCATGACCATTT
1 CAACTCCTCCATGACCATTT
22055797 CAACTCCTCCATGACCATTT
1 CAACTCCTCCATGACCATTT
22055817 CAACT
1 CAACT
22055822 TAGAGTCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.40, G:0.04, T:0.29
Consensus pattern (20 bp):
CAACTCCTCCATGACCATTT
Found at i:22060576 original size:22 final size:23
Alignment explanation
Indices: 22060548--22060591 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22060538 AGAAGATAAC
* *
22060548 TTCTTTATTTTATTA-TTATTAT
1 TTCTTTAATTTATGAGTTATTAT
22060570 TTCTTTAATTTATGAGTTATTA
1 TTCTTTAATTTATGAGTTATTA
22060592 ACATAATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (23 bp):
TTCTTTAATTTATGAGTTATTAT
Found at i:22064027 original size:40 final size:40
Alignment explanation
Indices: 22063953--22064094 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
22063943 AACCCAAGTA
* *
22063953 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
22063992 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
22064032 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
22064072 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
22064095 CATCTGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 12 0.12
40 83 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:22067473 original size:40 final size:39
Alignment explanation
Indices: 22067404--22067497 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 39
22067394 CCAACTCCGT
* * *
22067404 CCAA-CCTATCACACC-ATATGGGGATAAAATCGACCTAC
1 CCAACCCTA-CACACCAATATGGAGAAAAAATCGACCCAC
* * *
22067442 CCATCCCTACACACCAATTATGGAGAAAAAATTGACCCAT
1 CCAACCCTACACACCAA-TATGGAGAAAAAATCGACCCAC
*
22067482 TCAACCCTACACACCA
1 CCAACCCTACACACCA
22067498 TAAGGTACTG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 9 0.20
39 5 0.11
40 31 0.69
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (39 bp):
CCAACCCTACACACCAATATGGAGAAAAAATCGACCCAC
Found at i:22072024 original size:43 final size:43
Alignment explanation
Indices: 22071935--22072041 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
22071925 TGTGATTACA
* * * *
22071935 TGTAAGACCATGTCTAAGACATTGGCATTGTATTGTGATTATG
1 TGTAAGACCATGTCTAGGACATTGACATTGTAATGCGATTATG
22071978 TGTAAGACCATGTCTAGGACATTGACATCAT-TAAT-CGATT-TCG
1 TGTAAGACCATGTCTAGGACATTGACAT--TGTAATGCGATTAT-G
* *
22072021 TGTAAGACCCTTTCTAGGACA
1 TGTAAGACCATGTCTAGGACA
22072042 GCGGGATCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 50 0.91
44 3 0.05
45 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGACATTGTAATGCGATTATG
Found at i:22073955 original size:18 final size:17
Alignment explanation
Indices: 22073923--22073964 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
22073913 GACTAAGTGA
*
22073923 TTATGT-TTGATGGATGT
1 TTATGTGTTAATGGAT-T
22073940 TTATGTGTTAATGGATT
1 TTATGTGTTAATGGATT
22073957 TTCATGTG
1 TT-ATGTG
22073965 AGAAATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.52
Consensus pattern (17 bp):
TTATGTGTTAATGGATT
Found at i:22076244 original size:42 final size:43
Alignment explanation
Indices: 22076175--22076295 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 43
22076165 GTAATTCAGT
* * *
22076175 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAAT-T-AG
1 ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCAA
* * *
22076216 ATACGATGCCTATGTCCCAAACATGGTCTTACTCGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACAAGGTCTTACACG-AAATCTCAA
* *
22076261 ATCGAGGCCTATGTCCCAGACAAGGTGTTACACGA
1 ATCGATGCCTATGTCCCAGACAAGGTCTTACACGA
22076296 TATTTCAGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.42
43 5 0.08
44 28 0.42
45 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCAA
Found at i:22081851 original size:42 final size:43
Alignment explanation
Indices: 22081791--22081918 Score: 152
Period size: 44 Copynumber: 3.0 Consensus size: 43
22081781 GTAATTCAGT
* * *
22081791 ATCGATGCCTCTATCCCAGATAAGGTCTTACACGAAATCT--A
1 ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCAA
*
22081832 ATACGATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACAAGGTCTTACACG-AAATCTCAA
* * * *
22081877 ATCGAGGCCTATGTGCCAGACACGGTCTTACACGATATCTCA
1 ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCA
22081919 TATCAATGTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.37
43 13 0.17
44 29 0.39
45 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCAA
Found at i:22087467 original size:42 final size:43
Alignment explanation
Indices: 22087407--22087534 Score: 152
Period size: 44 Copynumber: 3.0 Consensus size: 43
22087397 GTAATTCAGT
* * *
22087407 ATCGATGCCTCTATCCCAGATAAGGTCTTACACGAAATCT--A
1 ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCAA
*
22087448 ATACGATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACAAGGTCTTACACG-AAATCTCAA
* * * *
22087493 ATCGAGGCCTATGTGCCAGACACGGTCTTACACGATATCTCA
1 ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCA
22087535 TATCAATGTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.37
43 13 0.17
44 29 0.39
45 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAATCTCAA
Found at i:22088477 original size:54 final size:54
Alignment explanation
Indices: 22088419--22088526 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
22088409 AAAAAAAATG
*
22088419 GAAAGCTAAAATGACTTTTCGTTTGTAAAGTTAAAAAATGCCAAATAAATTATT
1 GAAAGCTAAAATAACTTTTCGTTTGTAAAGTTAAAAAATGCCAAATAAATTATT
22088473 GAAAGCTAAAATAACTTTTCGTTTGTAAAGTTAAAAAATGCCAAATAAATTATT
1 GAAAGCTAAAATAACTTTTCGTTTGTAAAGTTAAAAAATGCCAAATAAATTATT
22088527 ATGTCTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (54 bp):
GAAAGCTAAAATAACTTTTCGTTTGTAAAGTTAAAAAATGCCAAATAAATTATT
Found at i:22088729 original size:54 final size:54
Alignment explanation
Indices: 22088671--22088780 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
22088661 ATATATATAT
* * *
22088671 ATATAAAAGAAAACACATTTTTATGAAATATAAGATTTTGTTAAAAGAAAGAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
* * *
22088725 ATATAAAAGCATACACGTTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
1 ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
22088779 AT
1 AT
22088781 CCAATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (54 bp):
ATATAAAAGAAAACACATTTTTATGAAATACAAGATTTTGCTAAAAGAAAAAGC
Found at i:22089981 original size:36 final size:36
Alignment explanation
Indices: 22089941--22090055 Score: 87
Period size: 36 Copynumber: 3.2 Consensus size: 36
22089931 AAGATCATTG
22089941 GGGAACCTTTTGCAACTCACTCATTTAGACTTGCCA
1 GGGAACCTTTTGCAACTCACTCATTTAGACTTGCCA
** * * ** *
22089977 GGGAACCAATTG--AGTGGACAAATTCCAAGATCATTG---
1 GGGAACCTTTTGCAACT-CACTCATT--TAGA-C-TTGCCA
22090013 GGGAACCTTTTGCAACTCACTCATTTAGACTTGCCA
1 GGGAACCTTTTGCAACTCACTCATTTAGACTTGCCA
22090049 GGGAACC
1 GGGAACC
22090056 AATTGAGTGG
Statistics
Matches: 55, Mismatches: 14, Indels: 20
0.62 0.16 0.22
Matches are distributed among these distances:
33 3 0.05
34 3 0.05
35 8 0.15
36 27 0.49
37 8 0.15
38 3 0.05
39 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (36 bp):
GGGAACCTTTTGCAACTCACTCATTTAGACTTGCCA
Found at i:22090092 original size:72 final size:71
Alignment explanation
Indices: 22089707--22090075 Score: 589
Period size: 72 Copynumber: 5.1 Consensus size: 71
22089697 GGATCTGTCG
22089707 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGGC-GGAGAACCAAT
1 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT-GCAGG-GAACCAAT
22089771 TGAGTGGA
64 TGAGTGGA
**
22089779 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGGTGGAACCAATT
1 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGCAG-GGAACCAATT
22089844 GAGTGGA
65 GAGTGGA
* * *
22089851 CAAATTCCAAGATCATTGGGGAATCTCTTGCAACTCACTCAATTAGACTTG-TGGCAGAACCAAT
1 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGCAGG--GAACCAAT
*
22089915 TGAGGGGA
64 TGAGTGGA
*
22089923 CAAATTCCAAGATCATTGGGGAACCTTTTGCAACTCACTCATTTAGACTTGCCAGGGAACCAATT
1 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTG-CAGGGAACCAATT
22089988 GAGTGGA
65 GAGTGGA
*
22089995 CAAATTCCAAGATCATTGGGGAACCTTTTGCAACTCACTCATTTAGACTTGCCAGGGAACCAATT
1 CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTG-CAGGGAACCAATT
22090060 GAGTGGA
65 GAGTGGA
22090067 CAAATTCCA
1 CAAATTCCA
22090076 TTGTCAATTC
Statistics
Matches: 281, Mismatches: 10, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
70 1 0.00
71 2 0.01
72 275 0.98
73 1 0.00
74 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (71 bp):
CAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGCAGGGAACCAATTG
AGTGGA
Found at i:22092895 original size:89 final size:87
Alignment explanation
Indices: 22092776--22093006 Score: 259
Period size: 86 Copynumber: 2.7 Consensus size: 87
22092766 AAGTCCTTCG
* * * * * * * * *
22092776 TTTTTTTAC-ACTCAATTGAGCACTTAAACTTTTAAAATGTATCAAAAATATCTTTACACTTCTT
1 TTTTTTTACTACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTAACACTTCTT
22092840 CAAAAAAAAGCAATTAAACCCCTA
66 C-AAAAAAA-CAATTAAACCCCTA
* *** *
22092864 TTTTTTTTCTACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTAATTTTTTTT
1 TTTTTTTACTACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTAACACTTCTT
* * *
22092929 CAAAGAAACAATTAAGCCTCTA
66 CAAAAAAACAATTAAACCCCTA
* *
22092951 -TTTTTTCCTACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGGCCTTAA
1 TTTTTTTACTACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTAA
22093007 ATTTTTTTCG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 54 0.44
87 12 0.10
88 14 0.11
89 43 0.35
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (87 bp):
TTTTTTTACTACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTAACACTTCTT
CAAAAAAACAATTAAACCCCTA
Found at i:22092971 original size:86 final size:87
Alignment explanation
Indices: 22092843--22093036 Score: 302
Period size: 86 Copynumber: 2.2 Consensus size: 87
22092833 ACTTCTTCAA
* *
22092843 AAAAAAGCAATTAAACCCCTATTTTTTTTCTACTCAATTGGGTACTTGAACTTTCATAATGCATC
1 AAAAAA-CAATTAAGCCCCTATTTTTTTCCTACTCAATTGGGTACTTGAACTTTCATAATGCATC
*
22092908 AAAAAGACCTTAATTTTTTTTC-
65 AAAAAGACCTTAAATTTTTTTCG
*
22092930 AAAGAAACAATTAAGCCTCTA-TTTTTTCCTACTCAATTGGGTACTTGAACTTTCATAATGCATC
1 AAA-AAACAATTAAGCCCCTATTTTTTTCCTACTCAATTGGGTACTTGAACTTTCATAATGCATC
*
22092994 AAAAAGGCCTTAAATTTTTTTCG
65 AAAAAGACCTTAAATTTTTTTCG
*
22093017 AAAAAGCAATTAAGCCCCTA
1 AAAAAACAATTAAGCCCCTA
22093037 CTCTTATTAA
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
86 77 0.79
87 18 0.18
88 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (87 bp):
AAAAAACAATTAAGCCCCTATTTTTTTCCTACTCAATTGGGTACTTGAACTTTCATAATGCATCA
AAAAGACCTTAAATTTTTTTCG
Found at i:22093248 original size:9 final size:9
Alignment explanation
Indices: 22093213--22093313 Score: 66
Period size: 9 Copynumber: 10.9 Consensus size: 9
22093203 ATAAAATTTC
22093213 ATAATTTTT
1 ATAATTTTT
*
22093222 -TACATTTCT
1 ATA-ATTTTT
22093231 AT-ATATTTT
1 ATAAT-TTTT
22093240 ATAATTTTTT
1 ATAA-TTTTT
*
22093250 AAAATTTTT
1 ATAATTTTT
*
22093259 ATAAAATTTT
1 AT-AATTTTT
*
22093269 ACAATTTTT
1 ATAATTTTT
22093278 ATATATTTTT
1 ATA-ATTTTT
*
22093288 AATAAATTTT
1 -ATAATTTTT
22093298 -TAATATTTT
1 ATAAT-TTTT
22093307 A-AATTTT
1 ATAATTTT
22093314 ATTAAAATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
8 10 0.14
9 31 0.43
10 27 0.38
11 4 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:22093249 original size:10 final size:10
Alignment explanation
Indices: 22093200--22093299 Score: 75
Period size: 9 Copynumber: 10.4 Consensus size: 10
22093190 TTCTTATGAC
*
22093200 TTTATAAAAT
1 TTTATAAATT
*
22093210 TTCAT-AATT
1 TTTATAAATT
*
22093219 TTT-TACATT
1 TTTATAAATT
* *
22093228 TCTATATA-T
1 TTTATAAATT
*
22093237 TTTATAATTT
1 TTTATAAATT
22093247 TTTA-AAATT
1 TTTATAAATT
*
22093256 TTTATAAAAT
1 TTTATAAATT
*
22093266 TTTA-CAATT
1 TTTATAAATT
*
22093275 TTTATATATT
1 TTTATAAATT
22093285 TTTAATAAATT
1 TTT-ATAAATT
22093296 TTTA
1 TTTA
22093300 ATATTTTAAA
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
8 1 0.01
9 31 0.46
10 27 0.40
11 9 0.13
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:22093258 original size:19 final size:19
Alignment explanation
Indices: 22093236--22093299 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
22093226 TTTCTATATA
22093236 TTTTATAATTTTTTAAAAT
1 TTTTATAATTTTTTAAAAT
** *
22093255 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTAAAAT
*
22093274 TTTTATATATTTTTAATAAAT
1 TTTTATA-ATTTTTTA-AAAT
22093295 TTTTA
1 TTTTA
22093300 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.64
20 5 0.14
21 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTAAAAT
Found at i:22093260 original size:56 final size:55
Alignment explanation
Indices: 22093200--22093329 Score: 147
Period size: 56 Copynumber: 2.3 Consensus size: 55
22093190 TTCTTATGAC
* * *
22093200 TTTATAAAATTTCATAATTTTT-TACATTTCT-ATATATTTTATAATTTTTTAAAATT
1 TTTATAAAATTTAATAATTTTTATACATTTCTAATAAATTTT-TAATATTTT-AAA-T
* * * *
22093256 TTTATAAAATTTTACAATTTTTATATATTTTTAATAAATTTTTAATATTTTAAAT
1 TTTATAAAATTTAATAATTTTTATACATTTCTAATAAATTTTTAATATTTTAAAT
22093311 TTTATTAAAATTTAATAAT
1 TTTA-TAAAATTTAATAAT
22093330 ATTATTGATT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
55 5 0.08
56 35 0.56
57 15 0.24
58 8 0.13
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (55 bp):
TTTATAAAATTTAATAATTTTTATACATTTCTAATAAATTTTTAATATTTTAAAT
Found at i:22093500 original size:89 final size:88
Alignment explanation
Indices: 22093405--22093598 Score: 273
Period size: 89 Copynumber: 2.2 Consensus size: 88
22093395 TTTTTTTTAT
* *
22093405 GTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTG-AAAAAAAAAGTAG
1 GTTTGAGGG-CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAAAAA-AAG
* *
22093469 GGGCTTAACTGCTTTTTTTGAAAAG
64 GGGCTTAACTGCTATTTTTGAAAAA
* *
22093494 GTTTGAGGGCCTTTTTGATGTATTTTGAAAGTTTAAGTACCCAAATGAGTGCAAAAAAAAAAAGG
1 GTTTGAGGG-CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAAAAAAAGG
* **
22093559 GGTTTAGTTGCTATTTTTGAAAAA
65 GGCTTAACTGCTATTTTTGAAAAA
22093583 GTTTGAGGGCTTTTTG
1 GTTTGAGGGCTTTTTG
22093599 CACCCTTAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 7 0.07
89 78 0.83
90 9 0.10
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (88 bp):
GTTTGAGGGCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAAAAAAAGGG
GCTTAACTGCTATTTTTGAAAAA
Found at i:22104022 original size:70 final size:69
Alignment explanation
Indices: 22103939--22104078 Score: 212
Period size: 70 Copynumber: 2.0 Consensus size: 69
22103929 TTTTTCCGCT
22103939 CAATTGGGTACTTGAACTTTCATAATGAAACAAAAGA-ACCTTAAATTTTTTTTCAAAGAAA-CA
1 CAATTGGGTACTTGAACTTTCATAATGAAACAAAA-ATACCTTAAA-TTTTTTTCAAA-AAAGCA
22104002 ATTAAGC
63 ATTAAGC
* * *
22104009 CAATTGGGTACTTGAACTTTCATAATGCATCAAAAATGCCTTAAATTTTTTTCAAAAAAGCAATT
1 CAATTGGGTACTTGAACTTTCATAATGAAACAAAAATACCTTAAATTTTTTTCAAAAAAGCAATT
22104074 AAGC
66 AAGC
22104078 C
1 C
22104079 CCTACTCTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
68 3 0.05
69 22 0.34
70 40 0.62
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (69 bp):
CAATTGGGTACTTGAACTTTCATAATGAAACAAAAATACCTTAAATTTTTTTCAAAAAAGCAATT
AAGC
Found at i:22104145 original size:20 final size:21
Alignment explanation
Indices: 22104120--22104159 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22104110 ATAAAAATAA
22104120 TAAATTTT-AGAAAAATTTAT
1 TAAATTTTAAGAAAAATTTAT
*
22104140 TAAATTTTAATAAAAATTTA
1 TAAATTTTAAGAAAAATTTA
22104160 AAATTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TAAATTTTAAGAAAAATTTAT
Found at i:22104165 original size:19 final size:20
Alignment explanation
Indices: 22104110--22104176 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 20
22104100 AAAAAAAATC
*
22104110 ATAAAAA-TAATAAATTTT-
1 ATAAAAATTTATAAATTTTA
*
22104128 AGAAAAATTTATTAAATTTTA
1 ATAAAAATTTA-TAAATTTTA
*
22104149 ATAAAAATTTA-AAATTTGA
1 ATAAAAATTTATAAATTTTA
*
22104168 TTAAAAATT
1 ATAAAAATT
22104177 AGAATTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.15
19 17 0.41
20 8 0.20
21 10 0.24
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
ATAAAAATTTATAAATTTTA
Found at i:22104485 original size:9 final size:9
Alignment explanation
Indices: 22104465--22104562 Score: 65
Period size: 10 Copynumber: 10.3 Consensus size: 9
22104455 TTCTTATAAC
22104465 TTTATAAAAT
1 TTTAT-AAAT
22104475 TTTATAAAT
1 TTTATAAAT
*
22104484 TTT-TATAT
1 TTTATAAAT
*
22104492 TTCTATATAT
1 TT-TATAAAT
22104502 TTTA-AAAT
1 TTTATAAAT
*
22104510 TTTTTAAAATT
1 TTTAT-AAA-T
22104521 TTTATAAAAT
1 TTTAT-AAAT
* *
22104531 TTTACAATT
1 TTTATAAAT
*
22104540 TTTATATATT
1 TTTATA-AAT
22104550 TTTAATAAAT
1 TTT-ATAAAT
22104560 TTT
1 TTT
22104563 TAATATTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
8 12 0.16
9 18 0.25
10 31 0.42
11 12 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTATAAAT
Found at i:22104530 original size:21 final size:21
Alignment explanation
Indices: 22104504--22104564 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
22104494 CTATATATTT
22104504 TAAAATTTTTTAAAATTTTTA
1 TAAAATTTTTTAAAATTTTTA
*
22104525 TAAAA--TTTTACAATTTTTA
1 TAAAATTTTTTAAAATTTTTA
* *
22104544 T-ATATTTTTAATAAATTTTTA
1 TAAAATTTTTTA-AAATTTTTA
22104565 ATATTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 4 0.12
21 13 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAATTTTTTAAAATTTTTA
Found at i:22104548 original size:47 final size:48
Alignment explanation
Indices: 22104460--22104570 Score: 129
Period size: 46 Copynumber: 2.4 Consensus size: 48
22104450 TAATTTTCTT
* * * *
22104460 ATAACTTTATAAAA-TTTTATAAATTTTTATATTTCTATATA-TTTTA
1 ATAAATTTTTAAAATTTTTATAAAATTTTAAATTTCTATATATTTTTA
* *
22104506 A-AATTTTTTAAAATTTTTATAAAATTTTACAATTTTTATATATTTTTA
1 ATAAATTTTTAAAATTTTTATAAAATTTTA-AATTTCTATATATTTTTA
*
22104554 ATAAATTTTTAATATTT
1 ATAAATTTTTAAAATTT
22104571 GATTTTTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 10 0.19
46 15 0.28
47 10 0.19
48 6 0.11
49 13 0.24
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (48 bp):
ATAAATTTTTAAAATTTTTATAAAATTTTAAATTTCTATATATTTTTA
Found at i:22104550 original size:10 final size:10
Alignment explanation
Indices: 22104474--22104570 Score: 62
Period size: 9 Copynumber: 10.2 Consensus size: 10
22104464 CTTTATAAAA
*
22104474 TTTTATA-AA
1 TTTTATATAT
22104483 TTTT-TATAT
1 TTTTATATAT
*
22104492 TTCTATATAT
1 TTTTATATAT
* *
22104502 TTTAAAAT-T
1 TTTTATATAT
*
22104511 TTTTA-AAAT
1 TTTTATATAT
* *
22104520 TTTTATAAAA
1 TTTTATATAT
*
22104530 TTTTACA-AT
1 TTTTATATAT
22104539 TTTTATATAT
1 TTTTATATAT
*
22104549 TTTTAATAAAT
1 TTTT-ATATAT
22104560 TTTTA-ATAT
1 TTTTATATAT
22104569 TT
1 TT
22104571 GATTTTTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 3 0.04
9 31 0.45
10 26 0.38
11 9 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTATATAT
Found at i:22104751 original size:97 final size:99
Alignment explanation
Indices: 22104638--22104820 Score: 273
Period size: 99 Copynumber: 1.9 Consensus size: 99
22104628 AATTTTTAAT
* * **
22104638 AAAATTAGGGGGTTAATTGCTTTTTTT-TTAA-GTTTGAGGG-TCTTTTTGATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCT-TTTTTGATGCATTTTGAAAG
*
22104700 TTCAAGTACCCAATTGACTGCAAAACAAAAAGAAA
65 TTCAAGTACCCAAATGACTGCAAAACAAAAAGAAA
*
22104735 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGTATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGCATTTTGAAAGT
*
22104800 TCAAGTACCCAAATGAGTGCA
66 TCAAGTACCCAAATGACTGCA
22104821 TAAAAAGAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
97 25 0.33
98 2 0.03
99 48 0.63
100 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (99 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAATGTTTGAGGGCTTTTTTGATGCATTTTGAAAGT
TCAAGTACCCAAATGACTGCAAAACAAAAAGAAA
Found at i:22107366 original size:15 final size:17
Alignment explanation
Indices: 22107340--22107371 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22107330 AAAAGTGTTA
22107340 AAAATGATTTTT-TTTT
1 AAAATGATTTTTATTTT
22107356 AAAAT-ATTTTTATTTT
1 AAAATGATTTTTATTTT
22107372 TTATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
AAAATGATTTTTATTTT
Found at i:22107372 original size:21 final size:20
Alignment explanation
Indices: 22107346--22107384 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22107336 GTTAAAAATG
*
22107346 ATTTTTTTTTAAAATATTTTT
1 ATTTTTTATTAAAA-ATTTTT
22107367 ATTTTTTATTAAAAATTT
1 ATTTTTTATTAAAAATTT
22107385 AGAATTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTTATTAAAAATTTTT
Found at i:22110841 original size:11 final size:13
Alignment explanation
Indices: 22110817--22110848 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
22110807 TAGTTTATTA
22110817 ATATTTTAATATG
1 ATATTTTAATATG
22110830 AT-TTTTAA-ATG
1 ATATTTTAATATG
22110841 ATATTTTA
1 ATATTTTA
22110849 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:22115299 original size:72 final size:72
Alignment explanation
Indices: 22115221--22115363 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 72
22115211 GGACCGGTTC
*
22115221 CAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGG-TGAACCAATTGAGTGG
1 CAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGT-GGCAGAACCAATTGAGTGG
22115285 ACAAATTT
65 ACAAATTT
* *
22115293 CAAGATCATTGGGGAACCTTTTGCAACTCACTCATTTAGACTTGTGGCAGAACCAATTGAGTGGA
1 CAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGGCAGAACCAATTGAGTGGA
22115358 CAAATT
66 CAAATT
22115364 CCATTGTCAA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 2 0.03
72 65 0.97
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (72 bp):
CAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTGGCAGAACCAATTGAGTGGA
CAAATTT
Found at i:22119985 original size:28 final size:29
Alignment explanation
Indices: 22119952--22120013 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
22119942 TACAAAATTC
22119952 TAAAAATTAAAAAT-TAAATGAAAGT-AGA
1 TAAAAATTAAAAATATAAAT-AAAGTGAGA
**
22119980 TAAAAATTTCAAATATAAATAAAGTGAGA
1 TAAAAATTAAAAATATAAATAAAGTGAGA
*
22120009 GAAAA
1 TAAAA
22120014 TCAGGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (29 bp):
TAAAAATTAAAAATATAAATAAAGTGAGA
Found at i:22120695 original size:300 final size:297
Alignment explanation
Indices: 22120153--22120748 Score: 1147
Period size: 300 Copynumber: 2.0 Consensus size: 297
22120143 TATAATCTGC
22120153 TTTTATAATTTGGGTTTTTAAAAATAAATTTAAATGAATTGAAAATTCGAATTGAGTTTGAAAAA
1 TTTTATAATTTGGGTTTTTAAAAATAAATTTAAATGAATTGAAAATTCGAATTGAGTTTGAAAAA
22120218 GAAAATTTTGTGGTATATTTTATATTTTTGCTAGAAAAATGGCATCAAAGTGGATTTCGTAATCT
66 GAAAATTTTGTGGTATATTTTATATTTTTGCTAGAAAAATGGCATCAAAGTGGATTTCGTAATCT
22120283 TTTGTAATATCAGTTACGGATGTTCTTCAAGGGCATGGAACTCAACTTGAAAATTTTACTAATTT
131 TTTGTAATATCAGTTACGGATGTTCTTCAAGGGCATGGAACTCAACTTGAAAATTTTACTAATTT
*
22120348 GGTTGCAAAAAACATTGGGGAAGCATAAAATGATCTAACCTTTTTTTTTTTGTTTTGTTCTGTTT
196 GGTTGCAAAAAACATTGGGGAAGCATAAAATGATCTAA-C--ATTTTTTTTGTTTTGTTCTGTTT
22120413 TTAATTTGTTATGGGATTCTATTGAATGATAATTTTTTTT
258 TTAATTTGTTATGGGATTCTATTGAATGATAATTTTTTTT
22120453 TTTTATAATTTGGGTTTTTAAAAATAAATTTAAATGAATTGAAAATTCGAATTGAGTTTGAAAAA
1 TTTTATAATTTGGGTTTTTAAAAATAAATTTAAATGAATTGAAAATTCGAATTGAGTTTGAAAAA
*
22120518 TAAAATTTTGTGGTATATTTTATATTTTTGCTAGAAAAATGGCATCAAAGTGGATTTCGTAATCT
66 GAAAATTTTGTGGTATATTTTATATTTTTGCTAGAAAAATGGCATCAAAGTGGATTTCGTAATCT
22120583 TTTGTAATATCAGTTACGGATGTTCTTCAAGGGCATGGAACTCAACTTGAAAATTTTACTAATTT
131 TTTGTAATATCAGTTACGGATGTTCTTCAAGGGCATGGAACTCAACTTGAAAATTTTACTAATTT
22120648 GGTTGCAAAAAACATTGGGGAAGCATAAAATGATCTAACATTTTTTTTGTTTTGTTCTGTTTTTA
196 GGTTGCAAAAAACATTGGGGAAGCATAAAATGATCTAACATTTTTTTTGTTTTGTTCTGTTTTTA
22120713 ATTTGTTATGGGATTCTATTGAATGATAATTTTTTT
261 ATTTGTTATGGGATTCTATTGAATGATAATTTTTTT
22120749 AATTTCCCAA
Statistics
Matches: 294, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
297 61 0.21
299 1 0.00
300 232 0.79
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (297 bp):
TTTTATAATTTGGGTTTTTAAAAATAAATTTAAATGAATTGAAAATTCGAATTGAGTTTGAAAAA
GAAAATTTTGTGGTATATTTTATATTTTTGCTAGAAAAATGGCATCAAAGTGGATTTCGTAATCT
TTTGTAATATCAGTTACGGATGTTCTTCAAGGGCATGGAACTCAACTTGAAAATTTTACTAATTT
GGTTGCAAAAAACATTGGGGAAGCATAAAATGATCTAACATTTTTTTTGTTTTGTTCTGTTTTTA
ATTTGTTATGGGATTCTATTGAATGATAATTTTTTTT
Found at i:22122661 original size:62 final size:61
Alignment explanation
Indices: 22122586--22122707 Score: 190
Period size: 62 Copynumber: 2.0 Consensus size: 61
22122576 ATGTCTAGTG
* *
22122586 GTACAAGTACTTTGAAAATATATAATGTGGTACCTGAACTATCAATATGTGTTATTATTATA
1 GTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATATATGTT-TTATTATA
* * *
22122648 GTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATATATGTTTTATTAT
1 GTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATATATGTTTTATTAT
22122708 GATACTTGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 7 0.13
62 48 0.87
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (61 bp):
GTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATATATGTTTTATTATA
Found at i:22125548 original size:36 final size:34
Alignment explanation
Indices: 22125508--22125588 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 34
22125498 AATTTAATTT
22125508 ATATTTTATTATTTGATTCA-AATATAATCTGTAAAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
22125544 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
22125579 ATATTTTATT
1 ATATTTTATT
22125589 GTATATTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
34 1 0.03
35 14 0.35
36 16 0.40
37 9 0.22
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Found at i:22125755 original size:19 final size:18
Alignment explanation
Indices: 22125713--22125758 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
22125703 ATATAATTGT
*
22125713 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
22125731 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
22125750 AATAATTTT
1 AATAATTTT
22125759 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:22125898 original size:21 final size:21
Alignment explanation
Indices: 22125870--22125924 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
22125860 ACCGCTGTTT
22125870 CTAATCTCACCGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
22125892 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
22125912 CTAATCTCACCGC
1 CTAATCTCACCGC
22125925 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.27, C:0.40, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:22128459 original size:141 final size:141
Alignment explanation
Indices: 22128205--22128486 Score: 564
Period size: 141 Copynumber: 2.0 Consensus size: 141
22128195 TAATCTTACA
22128205 ATGTTATTTTTGTCATCTTGCAATCTTAGTGAATTCCCCCAATTTTTGAAAGGGCTTAAAAGGTT
1 ATGTTATTTTTGTCATCTTGCAATCTTAGTGAATTCCCCCAATTTTTGAAAGGGCTTAAAAGGTT
22128270 GGAAATGTTAGACCTCTCTTGCAACAAACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGG
66 GGAAATGTTAGACCTCTCTTGCAACAAACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGG
22128335 GGAATGTCTCT
131 GGAATGTCTCT
22128346 ATGTTATTTTTGTCATCTTGCAATCTTAGTGAATTCCCCCAATTTTTGAAAGGGCTTAAAAGGTT
1 ATGTTATTTTTGTCATCTTGCAATCTTAGTGAATTCCCCCAATTTTTGAAAGGGCTTAAAAGGTT
22128411 GGAAATGTTAGACCTCTCTTGCAACAAACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGG
66 GGAAATGTTAGACCTCTCTTGCAACAAACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGG
22128476 GGAATGTCTCT
131 GGAATGTCTCT
22128487 TTGACTTTCT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (141 bp):
ATGTTATTTTTGTCATCTTGCAATCTTAGTGAATTCCCCCAATTTTTGAAAGGGCTTAAAAGGTT
GGAAATGTTAGACCTCTCTTGCAACAAACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGG
GGAATGTCTCT
Found at i:22128511 original size:59 final size:59
Alignment explanation
Indices: 22128438--22128555 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
22128428 CTTGCAACAA
22128438 ACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGGGGAATGTCTCTTTGACTTTCT
1 ACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGGGGAATGTCTCTTTGACTTTCT
22128497 ACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGGGGAATGTCTCTTTGACTTTCT
1 ACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGGGGAATGTCTCTTTGACTTTCT
22128556 TAAACGTATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (59 bp):
ACTTCAAGGCAAGATTCCACAGTGGATGCAAGAGGTGGGGAATGTCTCTTTGACTTTCT
Found at i:22128966 original size:45 final size:45
Alignment explanation
Indices: 22128915--22129002 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
22128905 CTTAAATGGA
22128915 AATCTGTTAGAAGGGCCTTTGACACCATCCATCCATAATTGTAAT
1 AATCTGTTAGAAGGGCCTTTGACACCATCCATCCATAATTGTAAT
*
22128960 AATCTGTTAGAAGGGCCTTTGACACCATCCATCCTTAATTGTA
1 AATCTGTTAGAAGGGCCTTTGACACCATCCATCCATAATTGTA
22129003 GAGGTCTGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (45 bp):
AATCTGTTAGAAGGGCCTTTGACACCATCCATCCATAATTGTAAT
Found at i:22129733 original size:79 final size:79
Alignment explanation
Indices: 22129602--22130468 Score: 1734
Period size: 79 Copynumber: 11.0 Consensus size: 79
22129592 CAATGTTTCT
22129602 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22129667 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22129681 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22129746 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22129760 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22129825 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22129839 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22129904 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22129918 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22129983 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22129997 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22130062 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22130076 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22130141 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22130155 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22130220 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22130234 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22130299 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22130313 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22130378 TGAAGGAAACAAGG
66 TGAAGGAAACAAGG
22130392 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
1 GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
22130457 TGAAGGAAACAA
66 TGAAGGAAACAA
22130469 AGGATTATGT
Statistics
Matches: 788, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 788 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.22
Consensus pattern (79 bp):
GAAAATAAACTCCATGGTCAGATTCCTCAAGGCAAACAGTTCAACACATTTGGAAATGATTCATA
TGAAGGAAACAAGG
Found at i:22131900 original size:85 final size:85
Alignment explanation
Indices: 22131764--22131988 Score: 224
Period size: 85 Copynumber: 2.6 Consensus size: 85
22131754 ATTTAAGTCC
* * * * * * ** * *
22131764 CTCT-TTTTTTTTAACACTCAATTGAGCACTTAAACTTTTAAAATGTGTCAAAAATATCTTTACA
1 CTCTATTTTTTTT-CCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTT--A
*
22131828 CTTCTTCAAAAAAAGCGATTAA-A
63 CTTCTTCAAAAAAA-CAATTAAGA
* * **
22131851 CTCT-TTTTTTTT-CGCTCAATTGGGTGCTTGAACTTTCATAATGCATCAAAAAGACCTTTTTTT
1 CTCTATTTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTTACTT
* * *
22131914 TTTCAAAGAAACAATTAAGC
66 CTTCAAAAAAACAATTAAGA
22131934 CTCTATTTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAG
1 CTCTATTTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAG
22131989 CAATTAAGGC
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
82 6 0.05
83 15 0.13
84 8 0.07
85 75 0.65
87 12 0.10
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (85 bp):
CTCTATTTTTTTTCCACTCAATTGGGTACTTGAACTTTCATAATGCATCAAAAAGACCTTTACTT
CTTCAAAAAAACAATTAAGA
Found at i:22132178 original size:90 final size:93
Alignment explanation
Indices: 22131996--22132181 Score: 236
Period size: 93 Copynumber: 2.0 Consensus size: 93
22131986 AAGCAATTAA
* * *
22131996 GGCCTTTTTCATGCATTATGAAAGTTCAAGTACCGAATTGAGTGCAAGAAAAAAAAAGTAGGGGC
1 GGCCTTTTTCATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
** *
22132061 TTAATTGCTTTTTTTGAAAATGTTTGAG
66 TTAATTGCCATTTTTGAAAAAGTTTGAG
* * * * *
22132089 GGCCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAAATGAGTGC-A-TAAAAAGAA-CAGGGG-
1 GGCCTTTTTCATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
22132150 TTCAATTGCCATTTTTGAAAAAGTTTGAG
66 TT-AATTGCCATTTTTGAAAAAGTTTGAG
22132179 GGC
1 GGC
22132182 TGTTTGCACC
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
89 2 0.02
90 31 0.38
91 7 0.09
92 1 0.01
93 40 0.49
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (93 bp):
GGCCTTTTTCATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
TTAATTGCCATTTTTGAAAAAGTTTGAG
Found at i:22137690 original size:62 final size:61
Alignment explanation
Indices: 22137615--22137739 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 61
22137605 AAATGTCTAG
* * *
22137615 TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTGAACTATCAATATGTGTTATTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTAAACTATCAATATATATT-TTATTA
* * * *
22137677 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATATATATTTTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTAAACTATCAATATATATTTTATTA
22137738 TG
1 TG
22137740 ATACTTGATA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 8 0.14
62 48 0.86
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTAAACTATCAATATATATTTTATTA
Found at i:22137911 original size:30 final size:30
Alignment explanation
Indices: 22137844--22137957 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 30
22137834 TTTCCTTTAA
* **
22137844 AATTTTTAGAAAA-TTTCAATTAAGCCCTCAA
1 AATTTTT-GAAAATTTTC-ATTAAGCACTCTT
*
22137875 AATTTTTGAAAATTTTCATTATA-C-CTTTT
1 AATTTTTGAAAATTTTCATTA-AGCACTCTT
* *
22137904 AATTTTTTAAAAAATTTTAATTAAGCACTCTT
1 AA-TTTTT-GAAAATTTTCATTAAGCACTCTT
* *
22137936 AAATTTTGAAAATTCTCATTAA
1 AATTTTTGAAAATTTTCATTAA
22137958 TCTCACAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
29 4 0.06
30 28 0.42
31 29 0.43
32 6 0.09
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.45
Consensus pattern (30 bp):
AATTTTTGAAAATTTTCATTAAGCACTCTT
Found at i:22137911 original size:61 final size:61
Alignment explanation
Indices: 22137837--22137956 Score: 161
Period size: 61 Copynumber: 2.0 Consensus size: 61
22137827 TTTGTTTTTT
* * *
22137837 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCCCTC-AAAATTTTTGAAAATTTTCATTATA
1 CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAA-TTTTGAAAATTCTCATTATA
* * * *
22137898 CCTTTTAATTTTTTAAAAAATTTTAATTAAGCACTCTTAAATTTTGAAAATTCTCATTA
1 CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTA
22137957 ATCTCACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 48 0.94
62 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.45
Consensus pattern (61 bp):
CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTATA
Found at i:22145158 original size:65 final size:66
Alignment explanation
Indices: 22145059--22145195 Score: 204
Period size: 65 Copynumber: 2.1 Consensus size: 66
22145049 TGCCAAACCT
* * *
22145059 CAATCTCCTCAACTTGGGACGTAACCAAAACCTCAATCTTGATCCTTTGAAGTTCAATCGGAGCA
1 CAATCTCCGCAACTTGGGAAGCAACCAAAACCTCAATCTTGATCCTTTGAAGTTCAATCGGAGCA
22145124 G
66 G
* * * *
22145125 CAATCT-CGCAACTTGGGAAGCAACCCAATCCTCAGTCTTGATCCTTTGAAGTTGAATCGGAGCA
1 CAATCTCCGCAACTTGGGAAGCAACCAAAACCTCAATCTTGATCCTTTGAAGTTCAATCGGAGCA
22145189 G
66 G
22145190 CAATCT
1 CAATCT
22145196 TGAACATTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 58 0.91
66 6 0.09
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (66 bp):
CAATCTCCGCAACTTGGGAAGCAACCAAAACCTCAATCTTGATCCTTTGAAGTTCAATCGGAGCA
G
Found at i:22146636 original size:88 final size:88
Alignment explanation
Indices: 22146487--22146663 Score: 291
Period size: 88 Copynumber: 2.0 Consensus size: 88
22146477 AGAACAAGTT
22146487 CTATGGGACGATTCCTCCAACATTTGCAGAGGGATGCCAATTGACTAATTTCAACATAAATGGAA
1 CTATGGGACGATTCCTCCAACATTTGCAGAGGGATGCCAATTGACTAATTTCAACATAAATGGAA
22146552 ATCTGTTAGAAGGGCCTCTGACA
66 ATCTGTTAGAAGGGCCTCTGACA
*** * * *
22146575 CTATGGGACGATTCCTCCAACATTTGCAGAGTTTTTCCAATTGAGTAATTTCAACTTAAATGGAA
1 CTATGGGACGATTCCTCCAACATTTGCAGAGGGATGCCAATTGACTAATTTCAACATAAATGGAA
*
22146640 ATCTGTTAGAAGGGCCTTTGACA
66 ATCTGTTAGAAGGGCCTCTGACA
22146663 C
1 C
22146664 CATCCATCGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (88 bp):
CTATGGGACGATTCCTCCAACATTTGCAGAGGGATGCCAATTGACTAATTTCAACATAAATGGAA
ATCTGTTAGAAGGGCCTCTGACA
Found at i:22147160 original size:202 final size:202
Alignment explanation
Indices: 22146848--22147216 Score: 711
Period size: 202 Copynumber: 1.8 Consensus size: 202
22146838 GGAATGATGG
* * *
22146848 TGGCTTCTATACCTATTCCATTGGATTTGTTATGAAAGGACAAGATAGGGAATTGTTGAAAATTT
1 TGGCTTCTATACCTATTCCATTGGAATAGTTATGAAAGGACAAGATAGGGAATTGGTGAAAATTT
22146913 TCACCATGTGGATGATCATTGATCTATCAAACAATCAGTTTGAAGGGGGTATTCCAAAGGTTATT
66 TCACCATGTGGATGATCATTGATCTATCAAACAATCAGTTTGAAGGGGGTATTCCAAAGGTTATT
22146978 GGGAAGCTTAACTTACTGAAAGGGCTCAACCTTTCTCGTGTCGTACATGGGGTTGAATTATCCTC
131 GGGAAGCTTAACTTACTGAAAGGGCTCAACCTTTCTCGTGTCGTACATGGGGTTGAATTATCCTC
22147043 GGGGTCC
196 GGGGTCC
22147050 TGGCTTCTATACCTATTCCATTGGAATAGTTATGAAAGGACAAGATAGGGAATTGGTGAAAATTT
1 TGGCTTCTATACCTATTCCATTGGAATAGTTATGAAAGGACAAGATAGGGAATTGGTGAAAATTT
22147115 TCACCATGTGGATGATCATTGATCTATCAAACAATCAGTTTGAAGGGGGTATTCCAAAGGTTATT
66 TCACCATGTGGATGATCATTGATCTATCAAACAATCAGTTTGAAGGGGGTATTCCAAAGGTTATT
22147180 GGGAAGCTTAACTTACTGAAAGGGCTCAACCTTTCTC
131 GGGAAGCTTAACTTACTGAAAGGGCTCAACCTTTCTC
22147217 ATAATAACCC
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
202 164 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (202 bp):
TGGCTTCTATACCTATTCCATTGGAATAGTTATGAAAGGACAAGATAGGGAATTGGTGAAAATTT
TCACCATGTGGATGATCATTGATCTATCAAACAATCAGTTTGAAGGGGGTATTCCAAAGGTTATT
GGGAAGCTTAACTTACTGAAAGGGCTCAACCTTTCTCGTGTCGTACATGGGGTTGAATTATCCTC
GGGGTCC
Found at i:22152280 original size:5 final size:5
Alignment explanation
Indices: 22152270--22152327 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
22152260 TGACAAAACC
* * * *
22152270 TAAAA TAAAA TAAAA TCAAAA TTAAA T-AAA TCAAT TAAAA T-AAA T-AAC
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
22152318 TAAAA TAAAA
1 TAAAA TAAAA
22152328 AAATAAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
4 11 0.25
5 28 0.64
6 5 0.11
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:22152296 original size:11 final size:10
Alignment explanation
Indices: 22152270--22152327 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
22152260 TGACAAAACC
22152270 TAAAATAAAA
1 TAAAATAAAA
22152280 TAAAATCAAAA
1 TAAAAT-AAAA
*
22152291 TTAAAT-AAA
1 TAAAATAAAA
* *
22152300 TCAATTAAAA
1 TAAAATAAAA
*
22152310 T-AAAT-AAC
1 TAAAATAAAA
22152318 TAAAATAAAA
1 TAAAATAAAA
22152328 AAATAAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 3 0.08
9 14 0.37
10 12 0.32
11 9 0.24
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:22152302 original size:15 final size:16
Alignment explanation
Indices: 22152271--22152327 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
22152261 GACAAAACCT
22152271 AAAATAAAATAAAATC
1 AAAATAAAATAAAATC
*
22152287 AAAATTAAAT-AAATC
1 AAAATAAAATAAAATC
* *
22152302 -AATTAAAATAAATAAC
1 AAAATAAAATAAA-ATC
22152318 TAAAATAAAA
1 -AAAATAAAA
22152328 AAATAAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 7 0.22
15 7 0.22
16 11 0.34
18 7 0.22
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAAATAAAATC
Found at i:22152334 original size:13 final size:14
Alignment explanation
Indices: 22152270--22152334 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
22152260 TGACAAAACC
22152270 TAAAATAAAATAAAA
1 TAAAATAAAAT-AAA
*
22152285 TCAAAATTAAATAAA
1 T-AAAATAAAATAAA
* *
22152300 TCAATTAAAATAAA
1 TAAAATAAAATAAA
*
22152314 T-AACTAAAATAAA
1 TAAAATAAAATAAA
22152327 -AAAATAAA
1 TAAAATAAA
22152335 TCAAAGATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.40
14 11 0.26
15 5 0.12
16 9 0.21
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:22159834 original size:18 final size:19
Alignment explanation
Indices: 22159808--22159843 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22159798 TTCTTCTTCA
*
22159808 TTTTCTCTTA-TTTATTTG
1 TTTTATCTTATTTTATTTG
22159826 TTTTATCTTATTTTATTT
1 TTTTATCTTATTTTATTT
22159844 TACTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTATCTTATTTTATTTG
Found at i:22160868 original size:20 final size:20
Alignment explanation
Indices: 22160834--22160871 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22160824 ATATATATAT
22160834 TAATCTATTTATTTGAAACG
1 TAATCTATTTATTTGAAACG
22160854 TAAT-TATTTATTTTGAAA
1 TAATCTATTTA-TTTGAAA
22160872 TGCCTTCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (20 bp):
TAATCTATTTATTTGAAACG
Found at i:22162831 original size:19 final size:19
Alignment explanation
Indices: 22162807--22162852 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22162797 CTCTTTTTCT
22162807 TTTGCATTC-ATTCCATGCA
1 TTTGCATTCTATTCCAT-CA
*
22162826 TTTGCATTCTATTGCATCA
1 TTTGCATTCTATTCCATCA
*
22162845 TATGCATT
1 TTTGCATT
22162853 AGAGTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGCATTCTATTCCATCA
Found at i:22166033 original size:6 final size:6
Alignment explanation
Indices: 22166007--22166056 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
22165997 CTTCACTTGA
* * *
22166007 AAAAAG AAACA- AAAAAG AAAAAT AAAAAG -AAAAG AAGAATG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG
22166054 AAA
1 AAA
22166057 GGAGAAGCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
5 9 0.26
6 21 0.60
7 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:22166033 original size:12 final size:11
Alignment explanation
Indices: 22166006--22166039 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
22165996 ACTTCACTTG
*
22166006 AAAAAAGAAAC
1 AAAAAAGAAAA
22166017 AAAAAAGAAAA
1 AAAAAAGAAAA
22166028 ATAAAAAGAAAA
1 A-AAAAAGAAAA
22166040 GAAGAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:22166039 original size:17 final size:18
Alignment explanation
Indices: 22166005--22166056 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
22165995 TACTTCACTT
*
22166005 GAAAAAAGAAACAA-AAAA
1 GAAAAATGAAA-AAGAAAA
22166023 GAAAAAT-AAAAAGAAAA
1 GAAAAATGAAAAAGAAAA
*
22166040 GAAGAATGAAAAAGAAA
1 GAAAAATGAAAAAGAAA
22166057 GGAGAAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 13 0.43
18 15 0.50
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
GAAAAATGAAAAAGAAAA
Found at i:22166039 original size:18 final size:19
Alignment explanation
Indices: 22166005--22166056 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 19
22165995 TACTTCACTT
* *
22166005 GAAAAAAGAAACA-AAAAA
1 GAAAAATGAAAAAGAAAAA
22166023 GAAAAAT-AAAAAG-AAAA
1 GAAAAATGAAAAAGAAAAA
*
22166040 GAAGAATGAAAAAGAAA
1 GAAAAATGAAAAAGAAA
22166057 GGAGAAGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 14 0.50
18 12 0.43
19 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (19 bp):
GAAAAATGAAAAAGAAAAA
Found at i:22166057 original size:17 final size:17
Alignment explanation
Indices: 22166019--22166056 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22166009 AAAGAAACAA
*
22166019 AAAAGAAAAATAAAAAG
1 AAAAGAAGAATAAAAAG
22166036 AAAAGAAGAATGAAAAAG
1 AAAAGAAGAAT-AAAAAG
22166054 AAA
1 AAA
22166057 GGAGAAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAGAAGAATAAAAAG
Found at i:22167398 original size:50 final size:50
Alignment explanation
Indices: 22167341--22167901 Score: 238
Period size: 50 Copynumber: 11.3 Consensus size: 50
22167331 GCTATGACGG
* * * *
22167341 CGAATCTTGCTTCTCTGACATTACAATTTAAAAGATTGAAGCCGCAACGA
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * * * ** * ** * *
22167391 CGAATCTTACTTCCTTGGCGA-TGCAGTGGATCAGATTAAAGCTACGACGG
1 CGAATCTTACTTCCCTGAC-ATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * * * * *
22167441 TGAATCTTGCTTCCCCGACATTGCAATTTAAAATATTGAAGCCGCAACGC
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * * ** * ** *
22167491 CGAATCTTACTTCCCTGGCGA-TGCAGTGGATCAGATTAAAGCTACGACGA
1 CGAATCTTACTTCCCTGAC-ATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * *
22167541 CGAATCTT-GTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGA
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * * * * * ** ** * *
22167590 CAAATTTTACTTCCTTGGCGA-TGCAGTGGATCAGATTGAAGCTACAATGG
1 CGAATCTTACTTCCCTGAC-ATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * * *
22167640 CGAATCTT-GTTCCCCGACATTGCAATTAAAAAAATTGAAGCCGCAACGA
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
** * * * * *** *
22167689 CGAATCTTACTTCCCTGGTAGTGCAGTGGAACAGATTGAAGCTATAACGG
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
* ** * * * * * *
22167739 TGAATC-TGGTTCCCCGATATTGCAATTAAAAAGATTGAAGCCACGACGG
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
* * ** * * * ** * *
22167788 TGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAA-ATTGAAGCTACGACGG
1 CGAATCTTACTTCCCTGACATTGCAATTGA-AAAGATTGAAGCCGCAACGA
* * * * * * * *
22167838 TGAATCTTGCTTCCCAGAGATTGTAATTAAAAAGATTGAAGCCACGAC-A
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
22167887 GCGAATCTTACTTCC
1 -CGAATCTTACTTCC
22167902 TTGGCGGTGC
Statistics
Matches: 356, Mismatches: 143, Indels: 24
0.68 0.27 0.05
Matches are distributed among these distances:
48 2 0.01
49 106 0.30
50 243 0.68
51 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGA
Found at i:22167609 original size:99 final size:99
Alignment explanation
Indices: 22167322--22167966 Score: 794
Period size: 99 Copynumber: 6.5 Consensus size: 99
22167312 TATAGTAGAG
* * * * *
22167322 CAGATTGAAGCTATGACGGCGAATCTTGCTTCTCTGACATTACAATTTAAAAGATTGAAGCCGCA
1 CAGATTGAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCA
*
22167387 ACGACGAATCTTACTTCCTTGGCGATGCAGTGGAT
65 ACGACGAATCTTACTTCCCTGGCGATGCAGTGGAT
* * * *
22167422 CAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAAATATTGAAGCCGCA
1 CAGATTGAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCA
*
22167487 ACGCCGAATCTTACTTCCCTGGCGATGCAGTGGAT
65 ACGACGAATCTTACTTCCCTGGCGATGCAGTGGAT
* *
22167522 CAGATTAAAGCTACGACGACGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
1 CAGATTGAAGCTACGACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* * *
22167587 CGACAAATTTTACTTCCTTGGCGATGCAGTGGAT
66 CGACGAATCTTACTTCCCTGGCGATGCAGTGGAT
* * *
22167621 CAGATTGAAGCTACAATGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAAATTGAAGCCGCAA
1 CAGATTGAAGCTACGACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* *
22167686 CGACGAATCTTACTTCCCTGG-TAGTGCAGTGGAA
66 CGACGAATCTTACTTCCCTGGCGA-TGCAGTGGAT
** * * * * *
22167720 CAGATTGAAGCTATAACGGTGAATCTGGTTCCCCGATATTGCAATTAAAAAGATTGAAGCCACGA
1 CAGATTGAAGCTACGACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
** * *
22167785 CGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAG
66 CGACGAATCTTACTTCCCTGGCGATGCAGTGGAT
* * * * * * *
22167819 CAAATTGAAGCTACGACGGTGAATCTTGCTTCCCAGAGATTGTAATTAAAAAGATTGAAGCCACG
1 CAGATTGAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCA
* * *
22167884 AC-AGCGAATCTTACTTCCTTGGCGGTGCAGTGGAG
65 ACGA-CGAATCTTACTTCCCTGGCGATGCAGTGGAT
* * *
22167919 CATATTGAAG-T-CGCAACGGCAAATCTTGTTCCCCGACATTGCAGTTAA
1 CAGATTGAAGCTACG--ACGGCGAATCTTGTTCCCCGACATTGCAATTAA
22167967 TTTGACAGAA
Statistics
Matches: 482, Mismatches: 57, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
98 3 0.01
99 278 0.58
100 201 0.42
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (99 bp):
CAGATTGAAGCTACGACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
CGACGAATCTTACTTCCCTGGCGATGCAGTGGAT
Found at i:22167926 original size:50 final size:50
Alignment explanation
Indices: 22167772--22167928 Score: 156
Period size: 50 Copynumber: 3.1 Consensus size: 50
22167762 AATTAAAAAG
22167772 ATTGAAGCCACGACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAA
1 ATTGAAGCCACGACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAA
* * * ** * * * **
22167822 ATTGAAGCTACGACGGTGAATCTTGCTTCCCAGAG-ATTGTAAT-TAAAAA
1 ATTGAAGCCACGACGGTGAATCTTACTTCCCTG-GCGGTGCAGTGGAGCAA
* * * *
22167871 GATTGAAGCCACGACAGCGAATCTTACTTCCTTGGCGGTGCAGTGGAGCAT
1 -ATTGAAGCCACGACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAA
22167922 ATTGAAG
1 ATTGAAG
22167929 TCGCAACGGC
Statistics
Matches: 79, Mismatches: 24, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
49 4 0.05
50 72 0.91
51 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (50 bp):
ATTGAAGCCACGACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGCAA
Found at i:22168070 original size:40 final size:40
Alignment explanation
Indices: 22168026--22168634 Score: 452
Period size: 40 Copynumber: 14.7 Consensus size: 40
22168016 AAACCACAGA
* *
22168026 TCTTATCTCCCTAAGCAGTAGTTGAGCAGATCGCATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
* *
22168066 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGTAGAAAT-CAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAG--A-TCG-AATCCAG
* ** *** * * ** *
22168109 TCCTATCTCTTTGAAATTGCAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATC-CAG
* * * * * *
22168152 ATCTTATCTCCTTAAGCAATAGTGGAGCAAATCGCATCAAA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
* * * *
22168193 TCTTATCTCTCTAAGCAGTAGTGGAGCAAATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
** * *
22168233 TCTTATCTCCCTAAGCAGTAGTGGAGCAAATGAAAGAAACCAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGC--A-GATCGAATCCAG
* ** * ** *
22168276 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATC-CAG
* * **
22168319 ATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCATAAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
*
22168360 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATC-CAG
* * * *
22168401 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGCATCGAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
* *
22168442 TCTTATCTCCCTAAGCAGTAGTAGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATC-CAG
* ** * *
22168483 ATCTTATCTCCCTAAGTAGTAGCAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
*
22168524 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATC-CAG
* ** *
22168565 ATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGCCTCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
*
22168606 TCTTATCTCCCTAAGTAGTAGTGGAGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAG
22168635 GTTGAAGATA
Statistics
Matches: 448, Mismatches: 94, Indels: 54
0.75 0.16 0.09
Matches are distributed among these distances:
39 2 0.00
40 211 0.47
41 19 0.04
42 109 0.24
43 60 0.13
44 47 0.10
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
Found at i:22168168 original size:87 final size:85
Alignment explanation
Indices: 22168066--22168429 Score: 286
Period size: 87 Copynumber: 4.3 Consensus size: 85
22168056 TCGCATCCAG
*
22168066 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGTAGAAATCAATCCTATCTCTTTGAAATTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA-A-AGTAGAAATCAATCCTATCTCTCTGAAATTGCAG
22168131 TGGAGCGGATTAAAACCACAGA
64 TGGAGCGGATTAAAACCACAGA
* * * * *
22168153 TCTTATCTCCTTAAGCAATAGTGGAGCAAA-TCG-CATCAAATCTTATCTCTCT--AA--GCAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAAAGTAGAAATC-AATCCTATCTCTCTGAAATTGCAGT
* ** *
22168212 --AGTGGAGCAAATCGCATCA-A
65 GGAGCGGATTAAAAC-CA-CAGA
* * * *
22168232 GTCTTATCTCCCTAAGCAGTAGTGGAGCAAATGAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAAA-G-TAGAAATCAATCCTATCTCTCTGAAATTGCA
*
22168297 GTGGAGCAGATTAAAACCACAGA
63 GTGGAGCGGATTAAAACCACAGA
* * * * * * * *** *
22168320 TCTTATCTCCCTAAGCAGTAGCGGAGCAGA-TCG-CATAAAGTCTTATCTCCCT-AAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAAAGTAGAAATCAA-TCCTATCTCTCTGAAATTGCAGT
* * *
22168382 GGAGCAGA-CAGAACCACAGA
65 GGAGCGGATTAAAACCACAGA
*
22168402 TCTTATCTCCCTAAGCAGTAGTAGAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCA
22168430 GATTGCATCG
Statistics
Matches: 222, Mismatches: 39, Indels: 37
0.74 0.13 0.12
Matches are distributed among these distances:
78 9 0.04
79 3 0.01
80 35 0.16
82 38 0.17
83 34 0.15
84 28 0.13
85 2 0.01
86 1 0.00
87 61 0.27
88 3 0.01
89 8 0.04
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (85 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAAAGTAGAAATCAATCCTATCTCTCTGAAATTGCAGTG
GAGCGGATTAAAACCACAGA
Found at i:22168209 original size:167 final size:168
Alignment explanation
Indices: 22168025--22168595 Score: 700
Period size: 167 Copynumber: 3.4 Consensus size: 168
22168015 AAAACCACAG
* * *
22168025 ATCTTATCTCCCTAAGCAGTAGTTGAGCAGATC-GCATC-CAG-TCTTATCTCCCTAAGCAGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAG
** * *
22168087 TGGAGCAGACAGTAGAAATCAATCCTATCTCTTTGAAATTGCAGTGGAGCGGATTAAAACCACAG
65 TGGAGCAGA-AGTAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * * *
22168152 ATCTTATCTCCTTAAGCAATAGTGGAGCAAATCGCATCAA
129 ATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCATCAA
* * * *
22168192 ATCTTATCTCTCTAAGCAGTAGTGGAGCAAATC-GCATCA-AG-TCTTATCTCCCTAAGCAGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAG
* *
22168254 TGGAGCA-AATGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
65 TGGAGCAGAA-G-TAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
22168318 GATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCAT-AA
128 GATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCATCAA
22168358 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAG
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAG
* * * * * ** * * * *
22168423 TAGAGCAG-A-TTG-CATCGAGTCTTATCTCCCT-AAGCAGTAGTAGAGCAGA-CAGAACCACAG
65 TGGAGCAGAAGTAGAAATC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* *
22168483 ATCTTATCTCCCTAAGTAGTAGCAGAGCAGATCGCATCAA
129 ATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCATCAA
* *
22168523 GTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
22168588 GGAGCAGA
66 GGAGCAGA
22168596 TCGCCTCAAG
Statistics
Matches: 358, Mismatches: 35, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
164 113 0.32
165 19 0.05
166 19 0.05
167 177 0.49
168 2 0.01
169 28 0.08
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (168 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGAAGTAGAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGAT
CTTATCTCCCTAAGCAGTAGCGGAGCAGATCGCATCAA
Found at i:22168419 original size:82 final size:82
Alignment explanation
Indices: 22168026--22168634 Score: 599
Period size: 82 Copynumber: 7.4 Consensus size: 82
22168016 AAACCACAGA
* * *
22168026 TCTTATCTCCCTAAGCAGTAGTTGAGCAGATC-GCATC-CAG-TCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
* *
22168088 GGAGCAGA-CAGTAGAAA-
65 GGAGCAGATC-GCATAAAG
** *** * * * * *
22168105 TCAATCCTATCTCTTTGAAATTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCTTAAGCA
1 TC--T--TATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCA
* *
22168170 ATAGTGGAGCAAATCGCATCAAA-
60 GTAGTGGAGCAGATCGCAT-AAAG
* * * *
22168193 TCTTATCTCTCTAAGCAGTAGTGGAGCAAATC-GCATCA-AG-TCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
* * * *
22168255 GGAGCAAAT-GAAAGAAACCAA
65 GGAGCAGATCG-CA-TAA--AG
* ** * * *
22168276 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAGTAG
*
22168341 CGGAGCAGATCGCATAAAG
64 TGGAGCAGATCGCATAAAG
*
22168360 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
* **
22168425 GAGCAGATTGCATCGAG
66 GAGCAGATCGCATAAAG
* * **
22168442 TCTTATCTCCCTAAGCAGTAGTAGAGCAGACAGAACCACAGATCTTATCTCCCTAAGTAGTAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
*
22168507 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATAAAG
*
22168524 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAATG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
* *
22168589 GAGCAGATCGCCTCAAG
66 GAGCAGATCGCATAAAG
*
22168606 TCTTATCTCCCTAAGTAGTAGTGGAGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAG
22168635 GTTGAAGATA
Statistics
Matches: 440, Mismatches: 70, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
79 3 0.01
80 32 0.07
81 3 0.01
82 230 0.52
83 45 0.10
84 48 0.11
85 5 0.01
86 8 0.02
87 59 0.13
88 7 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGCATAAAG
Found at i:22170395 original size:20 final size:20
Alignment explanation
Indices: 22170372--22170417 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
22170362 GTTTCCATTA
*
22170372 TTATTTATTTATTG-TCTAAT
1 TTATTTATATATTGATCT-AT
*
22170392 TTATATATATATTGATCTAT
1 TTATTTATATATTGATCTAT
22170412 TTATTT
1 TTATTT
22170418 GAAACGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATTTATATATTGATCTAT
Found at i:22173215 original size:28 final size:29
Alignment explanation
Indices: 22173182--22173243 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
22173172 TACAAAATTC
22173182 TAAAAATTAAAAAT-TAAATGAAAGT-AGA
1 TAAAAATTAAAAATATAAAT-AAAGTGAGA
**
22173210 TAAAAATTTCAAATATAAATAAAGTGAGA
1 TAAAAATTAAAAATATAAATAAAGTGAGA
*
22173239 GAAAA
1 TAAAA
22173244 TGAGGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (29 bp):
TAAAAATTAAAAATATAAATAAAGTGAGA
Found at i:22175575 original size:72 final size:72
Alignment explanation
Indices: 22175497--22175645 Score: 253
Period size: 72 Copynumber: 2.1 Consensus size: 72
22175487 TCAGGAACGG
* **
22175497 TTCCAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGGGGAACCAATTGAGT
1 TTCCAAGATCACTGGGGAACCACTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGT
22175562 GGACAAA
66 GGACAAA
* *
22175569 TTCCAAGATCATTGGGGAACCACTTGCAACTCACTCTTTTAGACTTGTCGCAGAACCAATTGAGT
1 TTCCAAGATCACTGGGGAACCACTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGT
22175634 GGACAAA
66 GGACAAA
22175641 TTCCA
1 TTCCA
22175646 TCGTCAATTC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (72 bp):
TTCCAAGATCACTGGGGAACCACTTGCAACTCACTCATTTAGACTTGTCGCAGAACCAATTGAGT
GGACAAA
Found at i:22179452 original size:28 final size:29
Alignment explanation
Indices: 22179419--22179480 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
22179409 TACAAAATTC
22179419 TAAAAATTAAAAAT-TAAATGAAAGT-AGA
1 TAAAAATTAAAAATATAAAT-AAAGTGAGA
**
22179447 TAAAAATTTCAAATATAAATAAAGTGAGA
1 TAAAAATTAAAAATATAAATAAAGTGAGA
*
22179476 GAAAA
1 TAAAA
22179481 TGAGGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (29 bp):
TAAAAATTAAAAATATAAATAAAGTGAGA
Found at i:22180922 original size:23 final size:25
Alignment explanation
Indices: 22180886--22180934 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
22180876 AGAATAAAAA
*
22180886 AATAACATCTTAATTT-AAATAATT
1 AATAACATCTTAATTTGAAAAAATT
*
22180910 AATAA-ATTTTAATTTGAAAAAATT
1 AATAACATCTTAATTTGAAAAAATT
22180934 A
1 A
22180935 TTTTGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (25 bp):
AATAACATCTTAATTTGAAAAAATT
Found at i:22185636 original size:45 final size:45
Alignment explanation
Indices: 22185572--22185660 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
22185562 CTGGTTGTGA
*
22185572 TTTGCAAGGAAAATTCCCAAACAACATTTTTGATTTGCCAAACCG
1 TTTGCAAGGAAAATTCCCAAAAAACATTTTTGATTTGCCAAACCG
22185617 TTTGCAAGGAAAATTCCCAAAAAACATTTTTGATTTGCCAAACC
1 TTTGCAAGGAAAATTCCCAAAAAACATTTTTGATTTGCCAAACC
22185661 TCAATCTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.29
Consensus pattern (45 bp):
TTTGCAAGGAAAATTCCCAAAAAACATTTTTGATTTGCCAAACCG
Found at i:22187710 original size:47 final size:47
Alignment explanation
Indices: 22187654--22187754 Score: 202
Period size: 47 Copynumber: 2.1 Consensus size: 47
22187644 TCCAACATGA
22187654 GAAGAAGTGAAGACGAAAGTCAAAGGATGGCAGCCGCAGCAATGGAC
1 GAAGAAGTGAAGACGAAAGTCAAAGGATGGCAGCCGCAGCAATGGAC
22187701 GAAGAAGTGAAGACGAAAGTCAAAGGATGGCAGCCGCAGCAATGGAC
1 GAAGAAGTGAAGACGAAAGTCAAAGGATGGCAGCCGCAGCAATGGAC
22187748 GAAGAAG
1 GAAGAAG
22187755 GATCTAGTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.42, C:0.16, G:0.35, T:0.08
Consensus pattern (47 bp):
GAAGAAGTGAAGACGAAAGTCAAAGGATGGCAGCCGCAGCAATGGAC
Found at i:22188124 original size:67 final size:67
Alignment explanation
Indices: 22188046--22188179 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
22188036 GTTAAACACA
22188046 ATTTCTTCCGTGTGGAAAATAATTTGGCATTCTGCAAATTTCCACAATGCTGGTAGATTACCTTC
1 ATTTCTTCCGTGTGGAAAATAATTTGGCATTCTGCAAATTTCCACAATGCTGGTAGATTACCTTC
22188111 GG
66 GG
22188113 ATTTCTTCCGTGTGGAAAATAATTTGGCATTCTGCAAATTTCCACAATGCTGGTAGATTACCTTC
1 ATTTCTTCCGTGTGGAAAATAATTTGGCATTCTGCAAATTTCCACAATGCTGGTAGATTACCTTC
22188178 GG
66 GG
22188180 TTGACAGCTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (67 bp):
ATTTCTTCCGTGTGGAAAATAATTTGGCATTCTGCAAATTTCCACAATGCTGGTAGATTACCTTC
GG
Found at i:22190568 original size:82 final size:82
Alignment explanation
Indices: 22190479--22190641 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
22190469 TTTTAGTTGG
*
22190479 TATAATAATAATAATTTTAGTCCTCAATTTTTTATACTTTCTGTCAATTTAACTCTGATTATATA
1 TATAATAATAATAATTTTAGTCCTCAATTTTTTATACTTTCTGTCAATTTAACTCTAATTATATA
22190544 AAATGATTACAAAAGTA
66 AAATGATTACAAAAGTA
22190561 TATAATAATAATAATTTTAGTCCTCAATTTTTTATACTTTCTGTCAATTTAACTCTAATTATATA
1 TATAATAATAATAATTTTAGTCCTCAATTTTTTATACTTTCTGTCAATTTAACTCTAATTATATA
22190626 AAATGATTACAAAAGT
66 AAATGATTACAAAAGT
22190642 GAAATTCTTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (82 bp):
TATAATAATAATAATTTTAGTCCTCAATTTTTTATACTTTCTGTCAATTTAACTCTAATTATATA
AAATGATTACAAAAGTA
Found at i:22190703 original size:28 final size:29
Alignment explanation
Indices: 22190670--22190731 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
22190660 TACAAAATTC
22190670 TAAAAATTAAAAAT-TAAATGAAAGT-AGA
1 TAAAAATTAAAAATATAAAT-AAAGTGAGA
**
22190698 TAAAAATTTCAAATATAAATAAAGTGAGA
1 TAAAAATTAAAAATATAAATAAAGTGAGA
*
22190727 GAAAA
1 TAAAA
22190732 TGAGGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (29 bp):
TAAAAATTAAAAATATAAATAAAGTGAGA
Found at i:22192648 original size:62 final size:61
Alignment explanation
Indices: 22192573--22192697 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 61
22192563 AAATGTTTAG
*
22192573 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTGAACTATCAATATG-TGTTATTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATA-GATGTT-TTATTA
* * *
22192635 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
22192696 TG
1 TG
22192698 ATACTTGGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 9 0.16
62 49 0.84
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
Found at i:22192869 original size:31 final size:32
Alignment explanation
Indices: 22192833--22192916 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
22192823 AGCCCCCAAA
22192833 ATTTTTGAAAATTTTCATTATA-C-CTTTTAATT
1 ATTTTTGAAAATTTTCATTA-AGCACTTTTAA-T
* *
22192865 TTTTTTGAAAATTTTAATTAAGCACTTTTAA-
1 ATTTTTGAAAATTTTCATTAAGCACTTTTAAT
* *
22192896 AATTTTGAAAATTCTCATTAA
1 ATTTTTGAAAATTTTCATTAA
22192917 TCTCACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 18 0.41
32 19 0.43
33 7 0.16
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTTTGAAAATTTTCATTAAGCACTTTTAAT
Found at i:22193016 original size:1 final size:1
Alignment explanation
Indices: 22193010--22193058 Score: 98
Period size: 1 Copynumber: 49.0 Consensus size: 1
22193000 ATTTTACTTG
22193010 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
22193059 AAAAAAAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:22196388 original size:87 final size:88
Alignment explanation
Indices: 22196291--22196512 Score: 209
Period size: 88 Copynumber: 2.5 Consensus size: 88
22196281 AAACTTTTTA
* * * * * * **
22196291 AATGTATCAAAAATATCTTTACACTTCTTAAAAAAAAGCAATTAAATCC-CTATTTTTT-TCTGC
1 AATGCATCAAAAAGACCTTAACACTTCTTAAAAAAAA-CAATT-AAGCCTCTATTTTTTCCCCAC
22196354 TCAA-TTGGGTACTTGAACTGTCAT
64 TCAATTTGGGTACTTGAACTGTCAT
*** * * *
22196378 AATGCATCAAAAAGACCTTAATTTTTTTTCAAAGAAACAATTAAGCCTCTATTTTTTCCCCACTC
1 AATGCATCAAAAAGACCTTAACACTTCTTAAAAAAAACAATTAAGCCTCTATTTTTTCCCCACTC
*
22196443 AATTTGGGTACTTGAACTTTCAT
66 AATTTGGGTACTTGAACTGTCAT
* * * * *
22196466 AATGCATCAAAAAGGCCTTAA-ATTTTTTTCAAAAAAGCAATTAAGCC
1 AATGCATCAAAAAGACCTTAACA-CTTCTTAAAAAAAACAATTAAGCC
22196513 CCTACTCTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
85 4 0.04
86 14 0.12
87 33 0.29
88 61 0.54
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (88 bp):
AATGCATCAAAAAGACCTTAACACTTCTTAAAAAAAACAATTAAGCCTCTATTTTTTCCCCACTC
AATTTGGGTACTTGAACTGTCAT
Found at i:22196466 original size:88 final size:87
Alignment explanation
Indices: 22196322--22196512 Score: 271
Period size: 88 Copynumber: 2.2 Consensus size: 87
22196312 CACTTCTTAA
* * **
22196322 AAAAAAGCAATTAAATCC-CTATTTTTT-TCTGCTCAATTGGGTACTTGAACTGTCATAATGCAT
1 AAAAAAGCAATT-AAGCCTCTATTTTTTCCCCACTCAATTGGGTACTTGAACTGTCATAATGCAT
*
22196385 CAAAAAGACCTTAATTTTTTTTC
65 CAAAAAGACCTTAAATTTTTTTC
*
22196408 AAAGAAA-CAATTAAGCCTCTATTTTTTCCCCACTCAATTTGGGTACTTGAACTTTCATAATGCA
1 AAA-AAAGCAATTAAGCCTCTATTTTTTCCCCACTCAA-TTGGGTACTTGAACTGTCATAATGCA
*
22196472 TCAAAAAGGCCTTAAATTTTTTTC
64 TCAAAAAGACCTTAAATTTTTTTC
22196496 AAAAAAGCAATTAAGCC
1 AAAAAAGCAATTAAGCC
22196513 CCTACTCTTA
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
85 4 0.04
86 17 0.18
87 12 0.13
88 60 0.65
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (87 bp):
AAAAAAGCAATTAAGCCTCTATTTTTTCCCCACTCAATTGGGTACTTGAACTGTCATAATGCATC
AAAAAGACCTTAAATTTTTTTC
Found at i:22196577 original size:20 final size:20
Alignment explanation
Indices: 22196544--22196591 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
22196534 AAAAAGAATC
*
22196544 ATAAAAA-TAATAAATTTTA
1 ATAAAAATTATTAAATTTTA
22196563 GA-AAAAATTATTAAATTTTA
1 -ATAAAAATTATTAAATTTTA
22196583 ATAAAAATT
1 ATAAAAATT
22196592 TAAAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAATTATTAAATTTTA
Found at i:22196959 original size:19 final size:18
Alignment explanation
Indices: 22196916--22196993 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 18
22196906 TATGACTTTA
* *
22196916 TAAAATTTTATAATTCTT
1 TAAATTTTTATAATTTTT
* *
22196934 TATATTTCTATATATTTTT
1 TAAATTTTTATA-ATTTTT
**
22196953 TAAATTTTTATAAAATTT
1 TAAATTTTTATAATTTTT
22196971 TACAATTTTTATATATTTTT
1 TA-AATTTTTATA-ATTTTT
22196991 TAA
1 TAA
22196994 TAATTTTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
18 15 0.32
19 26 0.55
20 6 0.13
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATTTTTATAATTTTT
Found at i:22196966 original size:10 final size:10
Alignment explanation
Indices: 22196912--22196990 Score: 60
Period size: 10 Copynumber: 8.3 Consensus size: 10
22196902 TTCTTATGAC
*
22196912 TTTATAAAAT
1 TTTATAAATT
22196922 TTTAT-AATT
1 TTTATAAATT
22196931 CTTTAT--ATT
1 -TTTATAAATT
* *
22196940 TCTATATATT
1 TTTATAAATT
22196950 TTT-TAAATT
1 TTTATAAATT
*
22196959 TTTATAAAAT
1 TTTATAAATT
*
22196969 TTTA-CAATT
1 TTTATAAATT
*
22196978 TTTATATATT
1 TTTATAAATT
22196988 TTT
1 TTT
22196991 TAATAATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.07
9 21 0.38
10 30 0.55
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATAAATT
Found at i:22196978 original size:28 final size:27
Alignment explanation
Indices: 22196947--22197027 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
22196937 ATTTCTATAT
22196947 ATTTTTTAAATTTTTATAAAATTTTACA
1 ATTTTTTAAATTTTTATAAAATTTT-CA
* *
22196975 ATTTTTATATATTTTT-TAATAATTTTTA
1 ATTTTT-TAAATTTTTATAA-AATTTTCA
* * *
22197003 ATATTTGAATTTTTTATTAAAATTT
1 ATTTTTTAAATTTTTA-TAAAATTT
22197028 AATAATATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.14
28 20 0.47
29 17 0.40
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (27 bp):
ATTTTTTAAATTTTTATAAAATTTTCA
Found at i:22196990 original size:11 final size:10
Alignment explanation
Indices: 22196945--22197008 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
22196935 ATATTTCTAT
22196945 ATATTTTTTA
1 ATATTTTTTA
22196955 A-ATTTTTATA
1 ATATTTTT-TA
* **
22196965 AAATTTTACA
1 ATATTTTTTA
*
22196975 AT-TTTTAT-
1 ATATTTTTTA
22196983 ATATTTTTTA
1 ATATTTTTTA
*
22196993 ATAATTTTTA
1 ATATTTTTTA
22197003 ATATTT
1 ATATTT
22197009 GAATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 2 0.05
9 16 0.37
10 20 0.47
11 5 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTTTA
Found at i:22198740 original size:28 final size:29
Alignment explanation
Indices: 22198707--22198768 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
22198697 TACAAAATTC
22198707 TAAAAATTAAAAAT-TAAATGAAAGT-AGA
1 TAAAAATTAAAAATATAAAT-AAAGTGAGA
**
22198735 TAAAAATTTCAAATATAAATAAAGTGAGA
1 TAAAAATTAAAAATATAAATAAAGTGAGA
*
22198764 GAAAA
1 TAAAA
22198769 TGAGGGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (29 bp):
TAAAAATTAAAAATATAAATAAAGTGAGA
Found at i:22198849 original size:25 final size:25
Alignment explanation
Indices: 22198821--22198902 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
22198811 TTATTTGTAA
22198821 AGAAATATCTAATATCCATTCTTTT
1 AGAAATATCTAATATCCATTCTTTT
* * * **
22198846 AGAAA-A-CATACTTTGCATTATCTGTAA
1 AGAAATATC-TAATATCCA-T-TCT-TTT
*
22198873 AAAAATATCTAATATCCATTCTTTT
1 AGAAATATCTAATATCCATTCTTTT
22198898 AGAAA
1 AGAAA
22198903 ATATAGAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
23 1 0.03
24 7 0.18
25 11 0.28
26 6 0.15
27 6 0.15
28 7 0.18
29 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (25 bp):
AGAAATATCTAATATCCATTCTTTT
Found at i:22198866 original size:52 final size:52
Alignment explanation
Indices: 22198804--22198903 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
22198794 TCCAAATTTT
* * *
22198804 CTTTGTATTATTTGTAAAGAAATATCTAATATCCATTCTTTTAGAAAACATA
1 CTTTGCATTATCTGTAAAAAAATATCTAATATCCATTCTTTTAGAAAACATA
22198856 CTTTGCATTATCTGTAAAAAAATATCTAATATCCATTCTTTTAGAAAA
1 CTTTGCATTATCTGTAAAAAAATATCTAATATCCATTCTTTTAGAAAA
22198904 TATAGAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (52 bp):
CTTTGCATTATCTGTAAAAAAATATCTAATATCCATTCTTTTAGAAAACATA
Found at i:22198892 original size:28 final size:27
Alignment explanation
Indices: 22198810--22198892 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 27
22198800 TTTTCTTTGT
*
22198810 ATTATTTGTAAAGAAATATCTAATATCC
1 ATTA-TTGTAAAAAAATATCTAATATCC
* * * *
22198838 ATTCTTTTAGAAAACATA-CT--T-TGC
1 ATTATTGTA-AAAAAATATCTAATATCC
22198862 ATTATCTGTAAAAAAATATCTAATATCC
1 ATTAT-TGTAAAAAAATATCTAATATCC
22198890 ATT
1 ATT
22198893 CTTTTAGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
24 13 0.32
25 6 0.15
27 7 0.17
28 14 0.35
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTATTGTAAAAAAATATCTAATATCC
Found at i:22198903 original size:26 final size:26
Alignment explanation
Indices: 22198823--22198906 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
22198813 ATTTGTAAAG
22198823 AAATATCTAATATCCATTCTTTTAGA
1 AAATATCTAATATCCATTCTTTTAGA
* * * * *
22198849 AAACATACT--T-TGCATTATCTGTAAAA
1 AAATAT-CTAATATCCA-T-TCTTTTAGA
22198875 AAATATCTAATATCCATTCTTTTAGA
1 AAATATCTAATATCCATTCTTTTAGA
22198901 AAATAT
1 AAATAT
22198907 AGAAAAAAAG
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
24 3 0.07
25 4 0.10
26 28 0.67
27 4 0.10
28 3 0.07
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (26 bp):
AAATATCTAATATCCATTCTTTTAGA
Found at i:22200824 original size:62 final size:61
Alignment explanation
Indices: 22200749--22200873 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 61
22200739 AAATGTTTAG
*
22200749 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTGAACTATCAATATG-TGTTATTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATA-GATGTT-TTATTA
* * *
22200811 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
22200872 TG
1 TG
22200874 ATACTTGGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 9 0.16
62 49 0.84
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAAATATATAATGTGGTACCTAAACTATCAATAGATGTTTTATTA
Found at i:22201045 original size:31 final size:32
Alignment explanation
Indices: 22201009--22201092 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
22200999 AGCCCCCAAA
22201009 ATTTTTGAAAATTTTCATTATA-C-CTTTTAATT
1 ATTTTTGAAAATTTTCATTA-AGCACTTTTAA-T
* *
22201041 TTTTTTGAAAATTTTAATTAAGCACTTTTAA-
1 ATTTTTGAAAATTTTCATTAAGCACTTTTAAT
* *
22201072 AATTTTGAAAATTCTCATTAA
1 ATTTTTGAAAATTTTCATTAA
22201093 TCTCACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 18 0.41
32 19 0.43
33 7 0.16
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTTTTGAAAATTTTCATTAAGCACTTTTAAT
Found at i:22201286 original size:60 final size:60
Alignment explanation
Indices: 22201199--22201312 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
22201189 CCTCCCCCCC
* *
22201199 AAAAAAACCTAGTCCCAACTACTAGTATCCGCCATTGTTACTTGGTATTAACACCCCAAA
1 AAAAAAACCTAGTCCCAACTACCAGTATCCGCCATTGGTACTTGGTATTAACACCCCAAA
* *
22201259 AAAAAAACCTAGTTCCAACTCCCAGTATCCGCCATTGGTACTTGGTATTAACAC
1 AAAAAAACCTAGTCCCAACTACCAGTATCCGCCATTGGTACTTGGTATTAACAC
22201313 TATTAGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.25
Consensus pattern (60 bp):
AAAAAAACCTAGTCCCAACTACCAGTATCCGCCATTGGTACTTGGTATTAACACCCCAAA
Found at i:22210334 original size:5 final size:5
Alignment explanation
Indices: 22210324--22210381 Score: 50
Period size: 5 Copynumber: 12.0 Consensus size: 5
22210314 TGACAAAACC
* * * *
22210324 TAAAA TAAAA TAAAA TCAAAA TTAAA T-AAA TCAAT TAAAA T-AAA T-AAC
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
22210372 TAAAA TAAAA
1 TAAAA TAAAA
22210382 AAATAAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
4 11 0.25
5 28 0.64
6 5 0.11
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:22210350 original size:11 final size:10
Alignment explanation
Indices: 22210324--22210381 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
22210314 TGACAAAACC
22210324 TAAAATAAAA
1 TAAAATAAAA
22210334 TAAAATCAAAA
1 TAAAAT-AAAA
*
22210345 TTAAAT-AAA
1 TAAAATAAAA
* *
22210354 TCAATTAAAA
1 TAAAATAAAA
*
22210364 T-AAAT-AAC
1 TAAAATAAAA
22210372 TAAAATAAAA
1 TAAAATAAAA
22210382 AAATAAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 3 0.08
9 14 0.37
10 12 0.32
11 9 0.24
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:22210356 original size:15 final size:16
Alignment explanation
Indices: 22210325--22210381 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
22210315 GACAAAACCT
22210325 AAAATAAAATAAAATC
1 AAAATAAAATAAAATC
*
22210341 AAAATTAAAT-AAATC
1 AAAATAAAATAAAATC
* *
22210356 -AATTAAAATAAATAAC
1 AAAATAAAATAAA-ATC
22210372 TAAAATAAAA
1 -AAAATAAAA
22210382 AAATAAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 7 0.22
15 7 0.22
16 11 0.34
18 7 0.22
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAAATAAAATC
Found at i:22210388 original size:13 final size:14
Alignment explanation
Indices: 22210324--22210388 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
22210314 TGACAAAACC
22210324 TAAAATAAAATAAAA
1 TAAAATAAAAT-AAA
*
22210339 TCAAAATTAAATAAA
1 T-AAAATAAAATAAA
* *
22210354 TCAATTAAAATAAA
1 TAAAATAAAATAAA
*
22210368 T-AACTAAAATAAA
1 TAAAATAAAATAAA
22210381 -AAAATAAA
1 TAAAATAAA
22210389 TCAAAGATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.40
14 11 0.26
15 5 0.12
16 9 0.21
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:22213302 original size:16 final size:16
Alignment explanation
Indices: 22213281--22213323 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
22213271 ACCCATAGAA
*
22213281 TATTTTTTTTATTTTT
1 TATTTTTTTTATATTT
*
22213297 TATTTTTTTCATATTT
1 TATTTTTTTTATATTT
22213313 TATTTTATTTT
1 TATTTT-TTTT
22213324 TTCACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTTTATATTT
Found at i:22213332 original size:28 final size:27
Alignment explanation
Indices: 22213280--22213335 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
22213270 AACCCATAGA
*
22213280 ATATTTTTTTTATTTTTTATTTTTTTC
1 ATATTTTTTTTATTTTTTATCTTTTTC
22213307 ATATTTTATTTTATTTTTTCA-CTTTTTC
1 ATATTTT-TTTTATTTTTT-ATCTTTTTC
22213335 A
1 A
22213336 ATCACTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.27
28 18 0.69
29 1 0.04
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (27 bp):
ATATTTTTTTTATTTTTTATCTTTTTC
Found at i:22220624 original size:70 final size:69
Alignment explanation
Indices: 22220511--22220650 Score: 203
Period size: 70 Copynumber: 2.0 Consensus size: 69
22220501 TTTTTCCGCT
22220511 CAATTGGGTACTTAAACTTTCATAATGAAACAAAAGAACCTTAAATTTTTTTTCAAAGAAA-CAA
1 CAATTGGGTACTTAAACTTTCATAATGAAACAAAAGAACCTTAAA-TTTTTTTCAAA-AAAGCAA
22220575 TTAAGC
64 TTAAGC
* * * *
22220581 CAATTGGGTACTTGAACTTTCATAATGCATCAAAA-ATGCCTTAAATTTTTTTCAAAAAAGCAAT
1 CAATTGGGTACTTAAACTTTCATAATGAAACAAAAGA-ACCTTAAATTTTTTTCAAAAAAGCAAT
22220645 TAAGC
65 TAAGC
22220650 C
1 C
22220651 CCTACTCTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
68 3 0.05
69 22 0.34
70 39 0.61
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (69 bp):
CAATTGGGTACTTAAACTTTCATAATGAAACAAAAGAACCTTAAATTTTTTTCAAAAAAGCAATT
AAGC
Found at i:22220725 original size:19 final size:19
Alignment explanation
Indices: 22220681--22220744 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
22220671 GAAAAAAATC
* *
22220681 ATAAAAATAATAAATTTTA
1 ATAAAATTATTAAATTTTA
*
22220700 GAAAAAATTATTAAATTTTA
1 -ATAAAATTATTAAATTTTA
*
22220720 ATAAAAATT-TAAAATTTTA
1 AT-AAAATTATTAAATTTTA
*
22220739 TTAAAA
1 ATAAAA
22220745 ATTAGAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 4 0.11
19 11 0.30
20 22 0.59
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAAAATTATTAAATTTTA
Found at i:22220744 original size:18 final size:19
Alignment explanation
Indices: 22220692--22220755 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
22220682 TAAAAATAAT
*
22220692 AAATTTT-AGAAAAAATTA
1 AAATTTTAATAAAAAATTA
*
22220710 TTAAATTTTAATAAAAATTTA
1 --AAATTTTAATAAAAAATTA
*
22220731 AAATTTT-ATTAAAAATTA
1 AAATTTTAATAAAAAATTA
*
22220749 GAATTTT
1 AAATTTT
22220756 TTTTAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 15 0.39
19 7 0.18
20 7 0.18
21 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATTTTAATAAAAAATTA
Found at i:22220745 original size:19 final size:20
Alignment explanation
Indices: 22220681--22220748 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
22220671 GAAAAAAATC
*
22220681 ATAAAAATAAT-AAATTTTA
1 ATAAAAATTATAAAATTTTA
*
22220700 GA-AAAAATTATTAAATTTTA
1 -ATAAAAATTATAAAATTTTA
22220720 ATAAAAATT-TAAAATTTTA
1 ATAAAAATTATAAAATTTTA
*
22220739 TTAAAAATTA
1 ATAAAAATTA
22220749 GAATTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 26 0.62
20 16 0.38
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATAAAAATTATAAAATTTTA
Found at i:22230351 original size:72 final size:72
Alignment explanation
Indices: 22230263--22231008 Score: 1046
Period size: 72 Copynumber: 10.3 Consensus size: 72
22230253 CTTGAGACGC
22230263 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
22230328 GTCAGAG
66 GTCAGAG
*
22230335 AACCAATTGAGGGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
22230400 GTCAGAG
66 GTCAGAG
* * *
22230407 AACCAATTGAGGGGACAAATTCCAAGATCATGGGGGAACCTCTTGCAACTCCCTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
*
22230472 GTCAGAA
66 GTCAGAG
* * * *** *
22230479 AACCAATTGAGGGGACAAATTCCCCAAAAAACATTTTTG-A--T-TTGCCAAACCTCAATCTC-C
1 AACCAATTGAGTGGACAAATT--CC-AAGATCATTGGGGAACCTCTTG-C-AA-CTC-A-CTCAT
*
22230539 TCA-ACTTG--AGACG
58 TTAGACTTGTCAGA-G
22230552 CAACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACT
1 -AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACT
22230617 TGTCAGAG
65 TGTCAGAG
22230625 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
*
22230690 GTC-GTGG
66 GTCAG-AG
* *
22230697 AACCAATTGAGTGGACAAATTCCAATATCATTGGGGAGCCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
*
22230762 GTC-GTGG
66 GTCAG-AG
* * *
22230769 AACCGATTGAGTGGACAAATTCCAATATCATTGGGGAGCCTCTTGCAACTCACTCATTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
*
22230834 GTC-GTGG
66 GTCAG-AG
* * *
22230841 AACCGATTGAGTGGACAAATTCCAAGATCATTGGGGAATCTCTTGCAACTCACTCAATTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
22230906 GTCAGAG
66 GTCAGAG
* **
22230913 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCACTTGCAACTCACTGTTTTAGACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
*
22230978 GTCAGGG
66 GTCAGAG
22230985 AACCAATTGAGTGGACAAATTCCA
1 AACCAATTGAGTGGACAAATTCCA
22231009 TTGTCAATTC
Statistics
Matches: 616, Mismatches: 38, Indels: 40
0.89 0.05 0.06
Matches are distributed among these distances:
70 3 0.00
71 15 0.02
72 541 0.88
73 6 0.01
74 36 0.06
75 12 0.02
76 3 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (72 bp):
AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
GTCAGAG
Done.