Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 125 of 349
Found at i:39807604 original size:18 final size:18
Alignment explanation
Indices: 39807542--39807605 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
39807532 GCACTTATGT
39807542 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTCGG
* * * * *
39807560 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-CTA-AACTT-CGG
39807581 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTCGG
39807599 GCTTCAG
1 GCTTCAG
39807606 ATCACGAAGG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 14 0.42
19 6 0.18
20 6 0.18
21 7 0.21
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (18 bp):
GCTTCAGCTAAACTTCGG
Found at i:39814128 original size:21 final size:20
Alignment explanation
Indices: 39814104--39814148 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
39814094 CTCCCTTTCA
* *
39814104 TTTTTTTTCCTCTCTTTTTGC
1 TTTTTCTTCCTCTCTTCTT-C
*
39814125 TTTTTCTTCCTTTCTTCTTC
1 TTTTTCTTCCTCTCTTCTTC
39814145 TTTT
1 TTTT
39814149 ATAGTGTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCTTCCTCTCTTCTTC
Found at i:39814943 original size:33 final size:30
Alignment explanation
Indices: 39814863--39814947 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 30
39814853 CCAACTTCGG
** *
39814863 AAAAATATAGTTTAAGTACCACTTATGACAA
1 AAAAATATAGTTTAAGTACCA-AGATGAAAA
*
39814894 AAAAAT-TATTTTAAGTACCAAGATGAAAGA
1 AAAAATATAGTTTAAGTACCAAGATGAAA-A
39814924 AAGAGAATATAGTTTAAGTACCAA
1 AA-A-AATATAGTTTAAGTACCAA
39814948 TTTATGAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 5 0.11
30 16 0.36
31 7 0.16
32 3 0.07
33 14 0.31
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (30 bp):
AAAAATATAGTTTAAGTACCAAGATGAAAA
Found at i:39816567 original size:127 final size:127
Alignment explanation
Indices: 39816436--39816756 Score: 389
Period size: 127 Copynumber: 2.5 Consensus size: 127
39816426 TAAACAAGAA
* *
39816436 ATCGAAACCCAACACATTAGGGCACAATTTCCT-GAATTGCCAAACATCAATCATCGCTTTTGTT
1 ATCGAAACCCAACACATTAGGGCACAA-TTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTT
* * *
39816500 TTAAAGTTTA-ATAAATGC-GA-ACGAAGTTTAAAAGGGAAATCTGAGTATTTAGACAAACGAAA
65 TTAAAGTTTAGA-AAACGCAGATA--AAATTTAAAAGGGAAATCTGAGTATTTAAACAAACGAAA
39816562 G
127 G
* * * *
39816563 ATCGAAACCCAGCACATTAGGGCACGATTCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTT
1 ATCGAAACCCAACACATTAGGGCACAATTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTT
* * * *
39816628 TAAGGTTTAGAAAACGCAGATAAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAG
66 TAAAGTTTAGAAAACGCAGATAAAATTTAAAAGGGAAATCTGAGTATTTAAACAAACGAAAG
** * * * * * *
39816690 ATCGAAACCCAACACATTAGGGCACGGTCCCTCGAATTTCTAAACATCAAACTTCACCTTTTTTT
1 ATCGAAACCCAACACATTAGGGCACAATTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTT
39816755 TA
66 TA
39816757 CAAAGTCACC
Statistics
Matches: 171, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
126 5 0.03
127 162 0.95
128 3 0.02
129 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (127 bp):
ATCGAAACCCAACACATTAGGGCACAATTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTT
TAAAGTTTAGAAAACGCAGATAAAATTTAAAAGGGAAATCTGAGTATTTAAACAAACGAAAG
Found at i:39817694 original size:3 final size:3
Alignment explanation
Indices: 39817683--39817922 Score: 102
Period size: 3 Copynumber: 80.3 Consensus size: 3
39817673 TGATGATAGC
* * * * *
39817683 AAT AGT AAT AAT -AT AAT AAA AAT AA- AGT CAAA AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * * * * *
39817727 ACATT AAT AAG AAT AAT AAT AGT -GT ATT GAT AAT AAC AAT AAT AGAA
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
39817774 AAT AAT GAT AA- AAT AAT AAT AAT AAT AA- ACT AAGG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * * * **
39817818 ACT AAC AAT AAT -AT AAAT AAT AAT AAA AAC AAC AAG AGA- AAT AGC
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
39817863 AAC AAC AAT AGT AAT AA- AAG AAT GAA- AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
39817907 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
39817923 GCAAATATTA
Statistics
Matches: 179, Mismatches: 41, Indels: 34
0.70 0.16 0.13
Matches are distributed among these distances:
2 15 0.08
3 150 0.84
4 12 0.07
5 2 0.01
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:39819585 original size:44 final size:45
Alignment explanation
Indices: 39819480--39819648 Score: 182
Period size: 44 Copynumber: 3.8 Consensus size: 45
39819470 TATAATTTAG
* * *
39819480 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGA-TTTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGA-TAT
* * * * *
39819525 CTTCAGTCTGCCCCACTGCAACTTCGGGGAGATAAGA-TTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGATAT
* * * *
39819569 CTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGACTTGAAAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGATAT
* *
39819614 -TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAG
39819649 GTTTATAGCT
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
44 65 0.63
45 38 0.37
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGATAT
Found at i:39819601 original size:89 final size:88
Alignment explanation
Indices: 39819480--39819648 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 88
39819470 TATAATTTAG
* * * * * * **
39819480 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGA-TTTACTATCTTCAGTCTGCCCCACTGC
1 CTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGACTTGA-AAT-TTCAACCTGCCCCACTGC
*
39819544 AACTTCGGGGAGATAAGATTGGTAT
64 AACTTCAGGGAGATAAGATTGGTAT
* *
39819569 CTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGACTTGAAATTTCAACCTGCTCCACTGCAA
1 CTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGACTTGAAATTTCAACCTGCCCCACTGCAA
39819634 CTTCAGGGAGATAAG
66 CTTCAGGGAGATAAG
39819649 GTTTATAGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
88 31 0.46
89 34 0.50
90 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (88 bp):
CTTCAATCTGCTCCACTACAACTTCAGAGAAATAAGACTTGAAATTTCAACCTGCCCCACTGCAA
CTTCAGGGAGATAAGATTGGTAT
Found at i:39819862 original size:88 final size:88
Alignment explanation
Indices: 39819679--39819864 Score: 223
Period size: 88 Copynumber: 2.1 Consensus size: 88
39819669 CCATTGTAAT
** * * * *
39819679 TTCAGGGAGAAGAGCTTTGTAGCTTCGATCTACTCCGCAGGAACTTCAAGGAGATACGAATTGTG
1 TTCAGGGAGAAGAAATTTGTAGCCTCGATCTACTCCACAGAAAATTCAAGGAGATACGAATTGTG
* * * * *
39819744 GCTTCGAGCCGCTCTAGTGACTT
66 ACTTCAACCCGCTCTACTGACTC
*
39819767 TTCAGGGAGAAGAAATTTGTAGCCTCGATCTACTCCACTGAAAATTCAAGGAGATACGAATTGTT
1 TTCAGGGAGAAGAAATTTGTAGCCTCGATCTACTCCACAGAAAATTCAAGGAGATACGAATTG-T
*
39819832 GATTTCAACCCGCTCTACT-ACTAC
65 GACTTCAACCCGCTCTACTGACT-C
39819856 TT-AGGGAGA
1 TTCAGGGAGA
39819865 TCAGATAGTG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
88 66 0.80
89 17 0.20
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (88 bp):
TTCAGGGAGAAGAAATTTGTAGCCTCGATCTACTCCACAGAAAATTCAAGGAGATACGAATTGTG
ACTTCAACCCGCTCTACTGACTC
Found at i:39820127 original size:64 final size:64
Alignment explanation
Indices: 39820026--39820146 Score: 215
Period size: 64 Copynumber: 1.9 Consensus size: 64
39820016 TCATGTATCT
* *
39820026 ATGCTTATGCCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
*
39820090 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACT
39820147 GAATGATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
Found at i:39826284 original size:127 final size:127
Alignment explanation
Indices: 39826152--39826469 Score: 370
Period size: 127 Copynumber: 2.5 Consensus size: 127
39826142 ACAAGAAATT
* * *
39826152 GAAACCCAACACATTAGGATACGATTTCCT-GAATTGCCAAACATCAATCATCGCTTTTGTTTTA
1 GAAACCCAACACATTAGGACACGA-TTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTTTA
* * * * * *
39826216 AAGTTTA-ATAAATGCGGACGAAGTTTAAAAGGGAAATCTGATTATTTAGACAAATGAAATATC
65 AAGTTTAGA-AAACGCGGACAAAATTTAAAAGGGAAATCTGATTATTTAAACAAACGAAAGATC
* * * * *
39826279 GAAACCCAGCACATTAGGGCACGATTCCTCGAATTTCTAAACATCAAACATTGCCTTTGTTTTAA
1 GAAACCCAACACATTAGGACACGATTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTTTAA
* * *
39826344 GGTTTAGAAAACGCGGACAAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAGATC
66 AGTTTAGAAAACGCGGACAAAATTTAAAAGGGAAATCTGATTATTTAAACAAACGAAAGATC
* * ** * * * * *
39826406 GAAACCCAACACATTAGGGCACAAGCCCTCGAATTTCTAAACATCAAACTTCACCTTTTTTTTA
1 GAAACCCAACACATTAGGACACGATTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTTTA
39826470 CAAAGTCACC
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
126 5 0.03
127 158 0.96
128 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (127 bp):
GAAACCCAACACATTAGGACACGATTCCTCGAATTGCCAAACATCAAACATCGCCTTTGTTTTAA
AGTTTAGAAAACGCGGACAAAATTTAAAAGGGAAATCTGATTATTTAAACAAACGAAAGATC
Found at i:39827190 original size:27 final size:26
Alignment explanation
Indices: 39827153--39827250 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
39827143 ATATGTATAT
*
39827153 ATATAATAATTTAAAATACAA-AGATAC
1 ATATAAAAATTTAAAATA-AATA-ATAC
*
39827180 ATATAAAAATTTTAAAATAAATACTAC
1 ATATAAAAA-TTTAAAATAAATAATAC
* * *
39827207 ATATGATAATTTAAAAGAAATAATAC
1 ATATAAAAATTTAAAATAAATAATAC
*
39827233 ATGTAAAATATTTAAAAT
1 ATATAAAA-ATTTAAAAT
39827251 TGATAATAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 20 0.34
27 28 0.48
28 10 0.17
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATAAAAATTTAAAATAAATAATAC
Found at i:39827602 original size:3 final size:3
Alignment explanation
Indices: 39827594--39827618 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39827584 AAAGAATGAA
39827594 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
39827619 GCAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:39828941 original size:3 final size:3
Alignment explanation
Indices: 39828933--39828957 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39828923 ACTAACACTT
39828933 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
39828958 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:39831161 original size:40 final size:40
Alignment explanation
Indices: 39831080--39831377 Score: 451
Period size: 40 Copynumber: 7.5 Consensus size: 40
39831070 CAACCAAGTA
* * *
39831080 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
39831119 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39831159 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39831199 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
39831239 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39831279 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39831319 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39831359 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39831378 TTATCATCCG
Statistics
Matches: 239, Mismatches: 15, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.07
40 222 0.93
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39831307 original size:120 final size:120
Alignment explanation
Indices: 39831080--39831381 Score: 529
Period size: 120 Copynumber: 2.5 Consensus size: 120
39831070 CAACCAAGTA
* * *
39831080 CCTTCGGGATTTAG-CCGGACA-TAG-CTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGA-ATTAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
*
39831142 AGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
64 AGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39831199 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
39831264 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39831319 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
39831382 CATCCGAATA
Statistics
Matches: 176, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
119 14 0.08
120 161 0.91
121 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39835522 original size:13 final size:13
Alignment explanation
Indices: 39835453--39835529 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
39835443 AAATGTCATT
*
39835453 TTTCATATATCTA
1 TTTCATATAACTA
* *
39835466 TATTCTTATAAATA
1 T-TTCATATAACTA
* *
39835480 TTTCGTATAAATA
1 TTTCATATAACTA
* **
39835493 CTTCATATAACCG
1 TTTCATATAACTA
*
39835506 TTTCATATATCTA
1 TTTCATATAACTA
39835519 TTTCCATATAA
1 TTT-CATATAA
39835530 ACATTTTGTA
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
13 32 0.67
14 16 0.33
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTCATATAACTA
Found at i:39835551 original size:53 final size:53
Alignment explanation
Indices: 39835453--39835562 Score: 123
Period size: 53 Copynumber: 2.1 Consensus size: 53
39835443 AAATGTCATT
* * * *
39835453 TTTCATATATCTATATTCTTATAAATATTTCGTATAAATACTTCATATAACCG
1 TTTCATATATCTATATTCATATAAACATTTCGTATAAACACTTCATATAACCA
* ** * *
39835506 TTTCATATATCTAT-TTCCATATAAACATTTTGTATATCCATTTCATATTACCA
1 TTTCATATATCTATATT-CATATAAACATTTCGTATAAACACTTCATATAACCA
39835559 TTTC
1 TTTC
39835563 CATTTACTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (53 bp):
TTTCATATATCTATATTCATATAAACATTTCGTATAAACACTTCATATAACCA
Found at i:39835685 original size:25 final size:25
Alignment explanation
Indices: 39835621--39835686 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
39835611 ACACGGGAAC
*
39835621 AATGCTCACACAAGCTATGACAGTA
1 AATGCTCACACGAGCTATGACAGTA
*
39835646 AATGCTCACACGAGCTATGACTGTA
1 AATGCTCACACGAGCTATGACAGTA
*
39835671 AATGCTCACATGAGCT
1 AATGCTCACACGAGCT
39835687 GTGAAATGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (25 bp):
AATGCTCACACGAGCTATGACAGTA
Found at i:39836404 original size:67 final size:66
Alignment explanation
Indices: 39836292--39836421 Score: 233
Period size: 67 Copynumber: 2.0 Consensus size: 66
39836282 CTAGCTTATT
39836292 TTCCACCTCATTGGTTAATATAGAACTATCGAACGGGTGCATGACAAGATTACCTTCTGGTCTAT
1 TTCCACCTCATTGGTTAATATAGAACTATCGAACGGGTGCATGACAAGATTACCTTCTGGTCTAT
39836357 C
66 C
* *
39836358 TTCCGACCTCATTGGTTAATATGGAACTATCGAACGGGTGCGTGACAAGATTACCTTCTGGTCT
1 TTCC-ACCTCATTGGTTAATATAGAACTATCGAACGGGTGCATGACAAGATTACCTTCTGGTCT
39836422 TACTTTATCT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 4 0.07
67 57 0.93
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (66 bp):
TTCCACCTCATTGGTTAATATAGAACTATCGAACGGGTGCATGACAAGATTACCTTCTGGTCTAT
C
Found at i:39841276 original size:3 final size:3
Alignment explanation
Indices: 39841264--39841296 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
39841254 TATTAGATTA
*
39841264 ATT A-T ATT ATT ATT ATT ACT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
39841297 AATAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:39841753 original size:27 final size:27
Alignment explanation
Indices: 39841701--39841755 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
39841691 ATAAAGTAAA
* *
39841701 TAAAAGAAACTAAAGAAAGAAAAGAAG
1 TAAAAGAAACAAAAGAAACAAAAGAAG
*
39841728 TAAAAGAAACAAAA-AGAACAACAGAAG
1 TAAAAGAAACAAAAGA-AACAAAAGAAG
39841755 T
1 T
39841756 CATTCAAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.69, C:0.07, G:0.16, T:0.07
Consensus pattern (27 bp):
TAAAAGAAACAAAAGAAACAAAAGAAG
Found at i:39842773 original size:47 final size:47
Alignment explanation
Indices: 39842676--39842776 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
39842666 CCTTGTGTTC
** * * *
39842676 CGTACTGTTACTGTTACTTCGGTTTAATCCGATGAGGTACTAAGTAT
1 CGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGCACTAAGTAT
* * *
39842723 CGTACTGTTACTGTTTACTTCGG-CAAAGCCAATGAGGCAGTGAGTGT
1 CGTACTGTTACTG-TTACTTCGGTCAAAGCCAATGAGGCACTAAGTAT
39842770 CGTACTG
1 CGTACTG
39842777 GTGTGTTGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 36 0.80
48 9 0.20
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (47 bp):
CGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGCACTAAGTAT
Found at i:39846802 original size:15 final size:15
Alignment explanation
Indices: 39846782--39846813 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
39846772 TATGCATGCA
39846782 AAATATAAAAGACAT
1 AAATATAAAAGACAT
39846797 AAATATAAAAGACAT
1 AAATATAAAAGACAT
39846812 AA
1 AA
39846814 CAGTGAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:39847974 original size:14 final size:17
Alignment explanation
Indices: 39847937--39847976 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
39847927 AAAGAAAGGG
39847937 AATTAAATATGAATATA
1 AATTAAATATGAATATA
*
39847954 AAATAAATA-G-A-ATA
1 AATTAAATATGAATATA
39847968 AATTAAATA
1 AATTAAATA
39847977 AAAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 11 0.52
15 1 0.05
16 1 0.05
17 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AATTAAATATGAATATA
Found at i:39848991 original size:20 final size:20
Alignment explanation
Indices: 39848945--39848991 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
39848935 ATATATAATT
*
39848945 TAAAATAATAATACCTAAAA
1 TAAAATAATAACACCTAAAA
*
39848965 -AATAATAATAACACTTAAAA
1 TAA-AATAATAACACCTAAAA
39848985 TAAAATA
1 TAAAATA
39848992 TAATGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAATAACACCTAAAA
Found at i:39857698 original size:44 final size:44
Alignment explanation
Indices: 39857647--39857735 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
39857637 AAAATTATAA
* **
39857647 ATTAAATTATAA-TTATTTAAAAATGTTTAATTATCACAACTTCT
1 ATTAAATTAAAATTTATTT-AAAATGCATAATTATCACAACTTCT
*
39857691 ATTAAATTAAAATTTATTTAAAATGCATAATTATCACAATTTCT
1 ATTAAATTAAAATTTATTTAAAATGCATAATTATCACAACTTCT
39857735 A
1 A
39857736 CTTTATTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 34 0.85
45 6 0.15
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (44 bp):
ATTAAATTAAAATTTATTTAAAATGCATAATTATCACAACTTCT
Found at i:39859244 original size:20 final size:21
Alignment explanation
Indices: 39859221--39859267 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
39859211 TTTCACATCA
*
39859221 ATTTAATAT-TAAAGAATAAT
1 ATTTAATATCAAAAGAATAAT
*
39859241 ATTTTATATCAAAAGAATAAT
1 ATTTAATATCAAAAGAATAAT
39859262 ATTTAA
1 ATTTAA
39859268 ATATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTTAATATCAAAAGAATAAT
Found at i:39859324 original size:30 final size:29
Alignment explanation
Indices: 39859271--39859389 Score: 109
Period size: 30 Copynumber: 4.0 Consensus size: 29
39859261 TATTTAAATA
**
39859271 TATATTAAAATATTT-TTAT-TTTTACTTT
1 TATATTAAAATATTTAAAATATTTTA-TTT
39859299 TATATTAAAATATTTAAAATATTTTATTTT
1 TATATTAAAATATTTAAAATATTTTA-TTT
* **
39859329 TATATTTAATAAAATTTAAAA-ATAATATTT
1 TATA-TTAA-AATATTTAAAATATTTTATTT
* *
39859359 TATATTAAATTATATTAAAAGATTTTATTT
1 TATATTAAAATAT-TTAAAATATTTTATTT
39859389 T
1 T
39859390 GTTATTCAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
28 18 0.24
29 12 0.16
30 27 0.36
31 8 0.11
32 10 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
TATATTAAAATATTTAAAATATTTTATTT
Found at i:39859351 original size:42 final size:43
Alignment explanation
Indices: 39859256--39859357 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 43
39859246 ATATCAAAAG
*
39859256 AATAATATTTAAATATATATTAAAATATTTTTATTTTTACTTTT
1 AATAA-ATTTAAAAATATATTAAAATATTTTTATTTTTACTTTT
39859300 -AT--A-TT-AAAATAT-TTAAAATA-TTTTATTTTTA-TATTT
1 AATAAATTTAAAAATATATTAAAATATTTTTATTTTTACT-TTT
39859336 AATAAAATTTAAAAATAATATT
1 AAT-AAATTTAAAAAT-ATATT
39859358 TTATATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 18
0.72 0.01 0.27
Matches are distributed among these distances:
35 1 0.02
36 14 0.29
37 10 0.21
38 6 0.12
39 2 0.04
40 2 0.04
41 2 0.04
42 5 0.10
43 4 0.08
44 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (43 bp):
AATAAATTTAAAAATATATTAAAATATTTTTATTTTTACTTTT
Found at i:39859920 original size:17 final size:17
Alignment explanation
Indices: 39859891--39859925 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39859881 TAAATTATGA
39859891 AAAATCTTTTTAAAAAT
1 AAAATCTTTTTAAAAAT
39859908 AAAAT-TTTATTAAAAAT
1 AAAATCTTT-TTAAAAAT
39859925 A
1 A
39859926 TAAAAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATCTTTTTAAAAAT
Found at i:39884030 original size:20 final size:20
Alignment explanation
Indices: 39883986--39884036 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
39883976 TGTGTCTCTG
* *
39883986 TGTGTGTGTGTGTGCGTGCA
1 TGTGTATGTGTGTGCATGCA
* *
39884006 CGTGTATGTGTGTGCATGTA
1 TGTGTATGTGTGTGCATGCA
39884026 TGTGTATGTGT
1 TGTGTATGTGT
39884037 CTTTATTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.10, C:0.08, G:0.39, T:0.43
Consensus pattern (20 bp):
TGTGTATGTGTGTGCATGCA
Found at i:39886685 original size:16 final size:16
Alignment explanation
Indices: 39886664--39886697 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39886654 CTTAAATATG
*
39886664 TATATCTTTCATAACA
1 TATATCATTCATAACA
*
39886680 TATATCATTCATATCA
1 TATATCATTCATAACA
39886696 TA
1 TA
39886698 GCTACATTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATCATTCATAACA
Found at i:39890381 original size:24 final size:22
Alignment explanation
Indices: 39890327--39890382 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
39890317 GTTAAGAATA
* *
39890327 TCTGCATCTGAATCTAAAATGT
1 TCTGCATATGAAACTAAAATGT
* *
39890349 TCTGTATATGAAACTAAAATTTTT
1 TCTGCATATGAAACTAAAA--TGT
39890373 TCTGCATATG
1 TCTGCATATG
39890383 TAATTAATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 16 0.59
24 11 0.41
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (22 bp):
TCTGCATATGAAACTAAAATGT
Found at i:39892486 original size:60 final size:60
Alignment explanation
Indices: 39892383--39892497 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
39892373 CATCAATATT
* * *
39892383 AATCTAGGCCATAGCCCCTTACAATATCAGAGTATACTGGGCCTAGCCTATATTAGTATC
1 AATCTAGGCCATAGCCCATTACAATATCAGAGTATACTAGGCCTAGCCCATATTAGTATC
* * * *
39892443 AATCTGGGCCATAGCCCTATTACAAGT-TGAGA-TATATTAGGCCTTGCCCATATTA
1 AATCTAGGCCATAGCCC-ATTACAA-TATCAGAGTATACTAGGCCTAGCCCATATTA
39892498 ACATAGTTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 35 0.76
61 10 0.22
62 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (60 bp):
AATCTAGGCCATAGCCCATTACAATATCAGAGTATACTAGGCCTAGCCCATATTAGTATC
Found at i:39892531 original size:19 final size:20
Alignment explanation
Indices: 39892488--39892533 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
39892478 ATTAGGCCTT
39892488 GCCCATATTAACATAGTTGG
1 GCCCATATTAACATAGTTGG
* *
39892508 GCCCATTTTAATATAGTT-G
1 GCCCATATTAACATAGTTGG
39892527 GCCCATA
1 GCCCATA
39892534 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (20 bp):
GCCCATATTAACATAGTTGG
Found at i:39895086 original size:30 final size:30
Alignment explanation
Indices: 39895051--39895109 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
39895041 GGTACAGACC
* *
39895051 GTGTGTGACACATGGTCTAGACACACGCCT
1 GTGTGTCACACACGGTCTAGACACACGCCT
* *
39895081 GTGTGTCACACACGGTTTAGACATACGCC
1 GTGTGTCACACACGGTCTAGACACACGCC
39895110 CCTGTGCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (30 bp):
GTGTGTCACACACGGTCTAGACACACGCCT
Found at i:39896273 original size:48 final size:48
Alignment explanation
Indices: 39896189--39896328 Score: 219
Period size: 48 Copynumber: 2.9 Consensus size: 48
39896179 ACGATGTCTG
* *
39896189 ATATAGATGCCAATGCCATAT-CCAGATATGGTCTTACATGGGATCAC
1 ATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
*
39896236 ATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
1 ATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
* * *
39896284 ATATCGATGCCAATGCCATGTCCCAAACATGATCTTACATGGGAT
1 ATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
39896329 TACACATAAC
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
47 19 0.22
48 67 0.78
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (48 bp):
ATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
Found at i:39913933 original size:7 final size:7
Alignment explanation
Indices: 39913921--39913946 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
39913911 AAGCTTGTAT
39913921 ACATTCG
1 ACATTCG
39913928 ACATTCG
1 ACATTCG
39913935 ACATTCG
1 ACATTCG
39913942 ACATT
1 ACATT
39913947 TGCATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (7 bp):
ACATTCG
Found at i:39929765 original size:46 final size:46
Alignment explanation
Indices: 39929697--39929977 Score: 289
Period size: 46 Copynumber: 6.1 Consensus size: 46
39929687 ATGTGATGAA
* * *
39929697 AACATGATATGAAATGTGTAAGACCATGGTTGAACGACACCATGGC
1 AACATGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
39929743 AACATGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
1 AACATGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
* * * *
39929789 AATA-GAATATAAAATGTGTAAGACCATGGTTGAAAGATACAATGGC
1 AACATG-ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
** * *
39929835 AACATGA-CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGC
1 AACATGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
* * * * * *
39929880 AATATAACATGAAATGAACAAGACCATGGTCGAAAGATACCATGGC
1 AACATGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
* * * ** * * *
39929926 AACCTAACAAAAAATG-AGTAAGACCATAGTTGAAAGACACTATGGC
1 AACATGATATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGC
*
39929972 ATCATG
1 AACATG
39929978 TCAAAGATAA
Statistics
Matches: 197, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
45 38 0.19
46 158 0.80
47 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
AACATGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGC
Found at i:39929895 original size:91 final size:92
Alignment explanation
Indices: 39929705--39929972 Score: 322
Period size: 91 Copynumber: 2.9 Consensus size: 92
39929695 AAAACATGAT
* * * *
39929705 ATGAAATGTGTAAGACCATGGTTGAACGACACCATGGCAACATGATATGAAATGTATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCAT
*
39929770 GGTTGAAAGATACCATGGCAATAGAAT
66 GGTTGAAAGATACCATGGCAATAGAAC
* * * *
39929797 ATAAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGA-CGGGAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCAT
*
39929861 GGTTGAAAGATACCATGGCAATATAAC
66 GGTTGAAAGATACCATGGCAATAGAAC
*** * * * * ** *
39929888 ATGAAATGAACAAGACCATGGTCGAAAGATACCATGGCAACCTAACAAAAAATGAGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCAT
* * *
39929953 AGTTGAAAGACACTATGGCA
66 GGTTGAAAGATACCATGGCA
39929973 TCATGTCAAA
Statistics
Matches: 149, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
91 77 0.52
92 72 0.48
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAATAGAAC
Found at i:39929961 original size:137 final size:137
Alignment explanation
Indices: 39929715--39929977 Score: 364
Period size: 137 Copynumber: 1.9 Consensus size: 137
39929705 ATGAAATGTG
* * * * * *
39929715 TAAGACCATGGTTGAACGACACCATGGCAACATGATATGAAATGTATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAACATGAAATGAACAAGACCATGGTCGAAAGA
* * * * * *
39929780 TACCATGGCAATAGAATATAAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGACGG
66 TACCATGGCAACAGAACAAAAAATGAGTAAGACCATAGTTGAAAGACACAATGGCAACATGACGG
39929845 GAATGAA
131 GAATGAA
* *
39929852 TAAGACCATGGTTGAAAGATACCATGGCAATATAACATGAAATGAACAAGACCATGGTCGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAACATGAAATGAACAAGACCATGGTCGAAAGA
** * *
39929917 TACCATGGCAACCTAACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACAGAACAAAAAATGAGTAAGACCATAGTTGAAAGACACAATGGCAACATG
39929978 TCAAAGATAA
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
137 108 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACATAACATGAAATGAACAAGACCATGGTCGAAAGA
TACCATGGCAACAGAACAAAAAATGAGTAAGACCATAGTTGAAAGACACAATGGCAACATGACGG
GAATGAA
Found at i:39930277 original size:16 final size:17
Alignment explanation
Indices: 39930258--39930291 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
39930248 AATGATGGAG
39930258 AATGAAAT-ATTGATAT
1 AATGAAATAATTGATAT
39930274 AATGAAATAATTGATAT
1 AATGAAATAATTGATAT
39930291 A
1 A
39930292 TACTTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (17 bp):
AATGAAATAATTGATAT
Found at i:39933235 original size:25 final size:25
Alignment explanation
Indices: 39933207--39933254 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
39933197 ACCTCACACT
39933207 CAAATTAAGAGTCATATCTATCTTA
1 CAAATTAAGAGTCATATCTATCTTA
*
39933232 CAAATTAAGAGTGATATCTATCT
1 CAAATTAAGAGTCATATCTATCT
39933255 AACTTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (25 bp):
CAAATTAAGAGTCATATCTATCTTA
Found at i:39933777 original size:3 final size:3
Alignment explanation
Indices: 39933769--39933798 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
39933759 TTGCACTCTC
39933769 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
39933799 AGTACTAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:39936846 original size:68 final size:67
Alignment explanation
Indices: 39936770--39936919 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
39936760 CATCATGTGT
* * * *
39936770 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
39936832 ATGTAG
62 ATGTAG
** * *
39936838 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
39936903 AG
66 AG
39936905 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
39936920 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:39936875 original size:64 final size:64
Alignment explanation
Indices: 39936794--39936977 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
39936784 AGACATTATG
* *
39936794 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
39936858 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
39936923 AA
63 AA
* * ** *
39936925 ACTG--GCTAGGTCACATGGGTGGTACTAAATGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
39936978 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:39939859 original size:15 final size:13
Alignment explanation
Indices: 39939821--39939865 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 13
39939811 TTTAAATGAC
39939821 AATAAAAATGCTAAA
1 AATAAAAA-G-TAAA
39939836 AATAAAAAGTAAA
1 AATAAAAAGTAAA
39939849 AATAAAGAAAGTAAA
1 AAT-AA-AAAGTAAA
39939864 AA
1 AA
39939866 CAACAAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 18 0.64
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (13 bp):
AATAAAAAGTAAA
Found at i:39949043 original size:19 final size:18
Alignment explanation
Indices: 39949006--39949049 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
39948996 ATACATGCAG
39949006 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
39949023 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
39949042 TACTAATT
1 TAATAATT
39949050 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:39950477 original size:16 final size:16
Alignment explanation
Indices: 39950456--39950523 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
39950446 TTTGGTTCGC
39950456 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
39950472 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
39950488 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
39950504 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
39950520 TGTA
1 TGTA
39950524 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:39950907 original size:14 final size:15
Alignment explanation
Indices: 39950858--39950909 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
39950848 ATAAAATATA
39950858 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
39950873 TATTAAATATATTAT
1 AATTAAATATATTAT
39950888 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
39950901 AATTTAATA
1 AATTAAATA
39950910 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:39950911 original size:59 final size:58
Alignment explanation
Indices: 39950742--39951038 Score: 164
Period size: 59 Copynumber: 5.0 Consensus size: 58
39950732 ATCATATTTA
* * *
39950742 AACATAATTATTATTAGATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TATAAAT
* * * * *
39950801 AATCA-ATATTCTTATATGAATTTACTCA-AA-TAATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAA-AATATATGAT-TTAATAAAATATAAA-T
* * *
39950862 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
39950921 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
39950982 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
39951039 ATAATTATAA
Statistics
Matches: 176, Mismatches: 38, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 53 0.30
60 34 0.19
61 46 0.26
62 13 0.07
63 9 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:39950957 original size:120 final size:121
Alignment explanation
Indices: 39950742--39951034 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
39950732 ATCATATTTA
* *
39950742 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
39950807 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
*
39950862 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
39950927 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
* * *
39950983 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
39951035 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 161 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
Found at i:39953724 original size:8 final size:8
Alignment explanation
Indices: 39953711--39953745 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
39953701 TAAAGATTCT
39953711 AAAAAAGA
1 AAAAAAGA
39953719 AAAAAAGA
1 AAAAAAGA
*
39953727 AACAAAG-
1 AAAAAAGA
39953734 AAAAAAGA
1 AAAAAAGA
39953742 AAAA
1 AAAA
39953746 GTAGAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:39953739 original size:15 final size:16
Alignment explanation
Indices: 39953714--39953743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39953704 AGATTCTAAA
39953714 AAAGAAAAAAAGAAAC
1 AAAGAAAAAAAGAAAC
39953730 AAAG-AAAAAAGAAA
1 AAAGAAAAAAAGAAA
39953744 AAGTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAAC
Found at i:39955362 original size:32 final size:32
Alignment explanation
Indices: 39955325--39955416 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
39955315 TAAAAAATTT
39955325 AAAAGTAAAACATAAATTACCAAATCATAAAA
1 AAAAGTAAAACATAAATTACCAAATCATAAAA
* * *
39955357 AAAAGTAAAACCTACATTCCCAAATCATAAAA
1 AAAAGTAAAACATAAATTACCAAATCATAAAA
* * * *
39955389 AAGAG-AGAAACTTAAATTTCTAAATCAT
1 AAAAGTA-AAACATAAATTACCAAATCAT
39955417 TGTTATTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 1 0.02
32 50 0.98
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (32 bp):
AAAAGTAAAACATAAATTACCAAATCATAAAA
Found at i:39955557 original size:23 final size:23
Alignment explanation
Indices: 39955530--39955585 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
39955520 GTCATTCTAT
*
39955530 ATTTTATATTATCATTAAAT-TTA
1 ATTTTATATT-TCAATAAATATTA
* *
39955553 ATTTTTATATTTTAATAATTATTA
1 A-TTTTATATTTCAATAAATATTA
39955577 ATTTTATAT
1 ATTTTATAT
39955586 ATTTATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTATATTTCAATAAATATTA
Found at i:39955591 original size:31 final size:31
Alignment explanation
Indices: 39955527--39955591 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
39955517 CATGTCATTC
* *
39955527 TATATTTTATATTATCATTAAATTTAATTTT
1 TATATTTTATATAATCATTAAATTTAATATT
* *
39955558 TATATTTTA-ATAATTATTAATTTTATATATT
1 TATATTTTATATAATCATTAAATTTA-ATATT
39955589 TAT
1 TAT
39955592 TATAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TATATTTTATATAATCATTAAATTTAATATT
Found at i:39956653 original size:53 final size:53
Alignment explanation
Indices: 39956533--39956740 Score: 251
Period size: 53 Copynumber: 3.9 Consensus size: 53
39956523 AACATTAAAG
* * * * * *
39956533 GACCATATCGTGTAAGATCGTAACTGGTGGG-T-TGAGGATAATATGGAAAAAA
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGA-CATCATATGGGAAGAA
* *
39956585 GACCATATTGTGTAAGACCGTAATTGGTGGGTTATGACATTATATGGGAAGAA
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGACATCATATGGGAAGAA
* * *
39956638 GACCATAACGTGTAAGACCGTAACTT-GTGGGTTATGGCATCATATAGGAAGAA
1 GACCATATCGTGTAAGACCGTAA-TTGGTGGGTTATGACATCATATGGGAAGAA
* * *
39956691 GACCATATCGTGTAAGATCATAATTGGTGGGTTATGGCATCATATGGGAA
1 GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGACATCATATGGGAA
39956741 AATCTAAGGA
Statistics
Matches: 136, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
52 30 0.22
53 101 0.74
54 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (53 bp):
GACCATATCGTGTAAGACCGTAATTGGTGGGTTATGACATCATATGGGAAGAA
Found at i:39956722 original size:106 final size:105
Alignment explanation
Indices: 39956533--39956740 Score: 285
Period size: 106 Copynumber: 2.0 Consensus size: 105
39956523 AACATTAAAG
* * *
39956533 GACCATATCGTGTAAGATCGTAACTGGTGGGTTGAGGATAATATGGAAAAAAGACCATATTGTGT
1 GACCATAACGTGTAAGACCGTAACTGGTGGGTTGAGGATAATATGGAAAAAAGACCATATCGTGT
* *
39956598 AAGACCGTAATTGGTGGGTTATGACATTATATGGGAAGAA
66 AAGACCATAATTGGTGGGTTATGACATCATATGGGAAGAA
* * *
39956638 GACCATAACGTGTAAGACCGTAACTTGTGGGTT-ATGGCATCATATAGG-AAGAAGACCATATCG
1 GACCATAACGTGTAAGACCGTAACTGGTGGGTTGA-GG-ATAATAT-GGAAAAAAGACCATATCG
* *
39956701 TGTAAGATCATAATTGGTGGGTTATGGCATCATATGGGAA
63 TGTAAGACCATAATTGGTGGGTTATGACATCATATGGGAA
39956741 AATCTAAGGA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
104 1 0.01
105 32 0.36
106 55 0.61
107 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (105 bp):
GACCATAACGTGTAAGACCGTAACTGGTGGGTTGAGGATAATATGGAAAAAAGACCATATCGTGT
AAGACCATAATTGGTGGGTTATGACATCATATGGGAAGAA
Found at i:39958408 original size:21 final size:21
Alignment explanation
Indices: 39958377--39958517 Score: 69
Period size: 21 Copynumber: 6.8 Consensus size: 21
39958367 TCGTGTTTTA
*
39958377 CTTTTCGTTTAGCTCTTACGAG
1 CTTTT-GTTTAGCTCTTATGAG
* *
39958399 CTTTTGTTTAACTCATATGAG
1 CTTTTGTTTAGCTCTTATGAG
* * *
39958420 -TTTTCGTTCAGCT-TTTTCAAG
1 CTTTT-GTTTAGCTCTTAT-GAG
* * **
39958441 CTTCTGTTCAAATCTTATGAG
1 CTTTTGTTTAGCTCTTATGAG
*
39958462 -TTTCTGTTCAGCTCTTATGAG
1 CTTT-TGTTTAGCTCTTATGAG
* * * *
39958483 CTTCTATTTAACTCATATGA-
1 CTTTTGTTTAGCTCTTATGAG
39958503 -TTTT-TTTAGCTCTTA
1 CTTTTGTTTAGCTCTTA
39958518 CAAGCTTCTG
Statistics
Matches: 89, Mismatches: 24, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
18 9 0.10
19 3 0.03
20 8 0.09
21 56 0.63
22 13 0.15
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (21 bp):
CTTTTGTTTAGCTCTTATGAG
Found at i:39958425 original size:42 final size:42
Alignment explanation
Indices: 39958378--39958576 Score: 183
Period size: 42 Copynumber: 4.8 Consensus size: 42
39958368 CGTGTTTTAC
* *
39958378 TTTTCGTTTAGCTCTTACGAGCTTTTGTTTAACTCATATGAG
1 TTTTCGTTTAGCTCTTACGAGCTTCTGTTCAACTCATATGAG
* * * * * *
39958420 TTTTCGTTCAGCTTTTTCAAGCTTCTGTTCAAATCTTATGAG
1 TTTTCGTTTAGCTCTTACGAGCTTCTGTTCAACTCATATGAG
* * * *
39958462 -TTTCTGTTCAGCTCTTATGAGCTTCTATTTAACTCATATGA-
1 TTTTC-GTTTAGCTCTTACGAGCTTCTGTTCAACTCATATGAG
* * *
39958503 TTTT--TTTAGCTCTTACAAGCTTCTGTTCAACCCTTAT-AG
1 TTTTCGTTTAGCTCTTACGAGCTTCTGTTCAACTCATATGAG
* * *
39958542 GTTTCTATTTAGCTCTCACGAGCTTCTGTTCAACT
1 TTTTC-GTTTAGCTCTTACGAGCTTCTGTTCAACT
39958577 TTCAAGCTTC
Statistics
Matches: 124, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
38 1 0.01
39 29 0.23
41 4 0.03
42 90 0.73
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTTCGTTTAGCTCTTACGAGCTTCTGTTCAACTCATATGAG
Found at i:39958556 original size:81 final size:83
Alignment explanation
Indices: 39958384--39958568 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 83
39958374 TTACTTTTCG
* * * *
39958384 TTTAGCTCTTACGAGCTTTTGTTTAACTCATATGAGTTTTCGTTCAGCTTTTTCAAGCTTCTGTT
1 TTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTTC-TTCAGCTCTTACAAGCTTCTGTT
* *
39958449 CAAATCTTATGAGTTTCTG
65 CAAACCTTATGAGTTTCTA
* * *
39958468 TTCAGCTCTTATGAGCTTCTATTTAACTCATATGA-TTTT-TTTAGCTCTTACAAGCTTCTGTTC
1 TTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTTCTTCAGCTCTTACAAGCTTCTGTTC
*
39958531 AACCCTTAT-AGGTTTCTA
66 AAACCTTATGA-GTTTCTA
*
39958549 TTTAGCTCTCACGAGCTTCT
1 TTTAGCTCTTACGAGCTTCT
39958569 GTTCAACTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 51 0.59
83 4 0.05
84 31 0.36
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.46
Consensus pattern (83 bp):
TTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTTCTTCAGCTCTTACAAGCTTCTGTTC
AAACCTTATGAGTTTCTA
Found at i:39964638 original size:21 final size:21
Alignment explanation
Indices: 39964616--39964826 Score: 151
Period size: 21 Copynumber: 10.2 Consensus size: 21
39964606 CTTTCCGTTT
* * *
39964616 AACTCTTACGAACTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
** *
39964637 AACTGATATGAGTTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
**
39964658 AGTTCTTATGAGCTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
*
39964679 AACTCTTATGAGTTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
* *
39964700 AGCTCTTATGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * * * *
39964721 AACTCATACGAGTTTTTTTTC
1 AACTCTTATGAGCTTCTGTTC
* *
39964742 AGCTCTTATGAGCTTCTATTC
1 AACTCTTATGAGCTTCTGTTC
* * * *
39964763 AACCCTTATGGGTTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * *
39964784 AGCTCTTATAAGATTCTGTT-
1 AACTCTTATGAGCTTCTGTTC
*
39964804 AAGAT-TT-TGAGCTTCTGTT-
1 AA-CTCTTATGAGCTTCTGTTC
39964823 AACT
1 AACT
39964827 ATGTACTCAA
Statistics
Matches: 143, Mismatches: 46, Indels: 5
0.74 0.24 0.03
Matches are distributed among these distances:
18 1 0.01
19 12 0.08
20 3 0.02
21 127 0.89
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (21 bp):
AACTCTTATGAGCTTCTGTTC
Found at i:39964674 original size:42 final size:42
Alignment explanation
Indices: 39964618--39964803 Score: 219
Period size: 42 Copynumber: 4.4 Consensus size: 42
39964608 TTCCGTTTAA
* * * *
39964618 CTCTTACGAACTTCTGTTTAACTGATATGAGTTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAG
* *
39964660 TTCTTATGAGCTTCTGTTCAACTCTTATGAGTTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAG
* * * *
39964702 CTCTTATGAGCTTCTGTTTAACTCATACGAGTTTTTTTTCAG
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAG
* * * * *
39964744 CTCTTATGAGCTTCTATTCAACCCTTATGGGTTTCTGTTTAG
1 CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAG
* *
39964786 CTCTTATAAGATTCTGTT
1 CTCTTATGAGCTTCTGTT
39964804 AAGATTTTGA
Statistics
Matches: 120, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 120 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (42 bp):
CTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCTGTTCAG
Found at i:39964743 original size:84 final size:84
Alignment explanation
Indices: 39964618--39964803 Score: 255
Period size: 84 Copynumber: 2.2 Consensus size: 84
39964608 TTCCGTTTAA
* * * * * * *
39964618 CTCTTACGAACTTCTGTTTAACTGATATGAGTTTCTGTTCAGTTCTTATGAGCTTCTGTTCAACT
1 CTCTTATGAGCTTCTGTTTAACTCATACGAGTTTCTGTTCAGCTCTTATGAGCTTCTATTCAACC
39964683 CTTATGAGTTTCTGTTCAG
66 CTTATGAGTTTCTGTTCAG
* *
39964702 CTCTTATGAGCTTCTGTTTAACTCATACGAGTTTTTTTTCAGCTCTTATGAGCTTCTATTCAACC
1 CTCTTATGAGCTTCTGTTTAACTCATACGAGTTTCTGTTCAGCTCTTATGAGCTTCTATTCAACC
* *
39964767 CTTATGGGTTTCTGTTTAG
66 CTTATGAGTTTCTGTTCAG
* *
39964786 CTCTTATAAGATTCTGTT
1 CTCTTATGAGCTTCTGTT
39964804 AAGATTTTGA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (84 bp):
CTCTTATGAGCTTCTGTTTAACTCATACGAGTTTCTGTTCAGCTCTTATGAGCTTCTATTCAACC
CTTATGAGTTTCTGTTCAG
Found at i:39972931 original size:13 final size:13
Alignment explanation
Indices: 39972913--39972954 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
39972903 AAACCCTAAA
39972913 TTTTCTCTCTTT-T
1 TTTTCT-TCTTTCT
39972926 TTTTCTTTCTTTCT
1 TTTTC-TTCTTTCT
39972940 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
39972953 TT
1 TT
39972955 CCCCTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:39972940 original size:17 final size:17
Alignment explanation
Indices: 39972914--39972955 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
39972904 AACCCTAAAT
* *
39972914 TTTCTCTCTTTTTTTTC
1 TTTCTTTCTTTTTCTTC
39972931 TTTCTTTCTTTTTCTTC
1 TTTCTTTCTTTTTCTTC
39972948 TTTCTTTC
1 TTTCTTTC
39972956 CCCTTGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTCTTTTTCTTC
Found at i:39973181 original size:5 final size:5
Alignment explanation
Indices: 39973173--39973199 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
39973163 ATACTTTAAT
39973173 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
39973200 ATATTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:39977802 original size:40 final size:40
Alignment explanation
Indices: 39977718--39977901 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
39977708 TTGAATGCTG
* * * *
39977718 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
39977757 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
39977798 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
39977838 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
39977878 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39977902 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:39977855 original size:80 final size:81
Alignment explanation
Indices: 39977718--39977898 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
39977708 TTGAATGCTG
* * *
39977718 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
39977782 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
39977798 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
39977859 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
39977878 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
39977899 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:39977922 original size:39 final size:38
Alignment explanation
Indices: 39977799--39977948 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
39977789 GTTATTAATT
* ** * *
39977799 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
39977839 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
39977878 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
39977918 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
39977949 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:39985648 original size:40 final size:40
Alignment explanation
Indices: 39985564--39985747 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
39985554 TTGAATGCTG
* * * *
39985564 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
39985603 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
39985644 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
39985684 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
39985724 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39985748 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:39985701 original size:80 final size:81
Alignment explanation
Indices: 39985564--39985744 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
39985554 TTGAATGCTG
* * *
39985564 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
39985628 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
39985644 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
39985705 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
39985724 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
39985745 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:39985768 original size:39 final size:38
Alignment explanation
Indices: 39985645--39985794 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
39985635 GTTATTAATT
* ** * *
39985645 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
39985685 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
39985724 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
39985764 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
39985795 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:39992249 original size:5 final size:5
Alignment explanation
Indices: 39992241--39992267 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
39992231 TTATTTATTT
39992241 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
39992268 ATATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:39995545 original size:39 final size:39
Alignment explanation
Indices: 39995491--39995571 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
39995481 AAATACTTCT
39995491 CCATATCATTTGAACACCTCACATTCAGACCATGCAAGA
1 CCATATCATTTGAACACCTCACATTCAGACCATGCAAGA
39995530 CCATATCATTTGAACACCTCACATTCAGACCATGCAAGA
1 CCATATCATTTGAACACCTCACATTCAGACCATGCAAGA
39995569 CCA
1 CCA
39995572 AGTTTTTCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.36, C:0.32, G:0.10, T:0.22
Consensus pattern (39 bp):
CCATATCATTTGAACACCTCACATTCAGACCATGCAAGA
Found at i:40000016 original size:17 final size:17
Alignment explanation
Indices: 39999994--40000041 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 17
39999984 ATTTTTTTAT
39999994 ATATTTTAATTATAAAA
1 ATATTTTAATTATAAAA
40000011 ATA-TTT-A-TATAAAA
1 ATATTTTAATTATAAAA
40000025 ATAATATTTAATT-TAAA
1 AT-AT-TTTAATTATAAA
40000042 TAAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 3 0.12
17 6 0.23
18 5 0.19
19 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTTTAATTATAAAA
Found at i:40000044 original size:16 final size:16
Alignment explanation
Indices: 39999998--40000044 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
39999988 TTTTATATAT
39999998 TTTAATTATAAA-AATA
1 TTTAATT-TAAATAATA
**
40000014 TTTATATAAAAATAATA
1 TTTA-ATTTAAATAATA
40000031 TTTAATTTAAATAA
1 TTTAATTTAAATAA
40000045 AAAAATTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAATTTAAATAATA
Found at i:40008597 original size:24 final size:26
Alignment explanation
Indices: 40008550--40008607 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
40008540 CAGCTTGTGT
*
40008550 GAGCTTACTGATATATCAGCTCGTAA
1 GAGCTTACTGATATATCAGATCGTAA
* *
40008576 GAGCTTACT-AT-TTTCAGATCGTCA
1 GAGCTTACTGATATATCAGATCGTAA
40008600 GAGCTTAC
1 GAGCTTAC
40008608 CGTTTCAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 18 0.62
25 2 0.07
26 9 0.31
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (26 bp):
GAGCTTACTGATATATCAGATCGTAA
Found at i:40011962 original size:10 final size:10
Alignment explanation
Indices: 40011947--40011974 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
40011937 TAAATTGATA
40011947 AAAAAAAATT
1 AAAAAAAATT
40011957 AAAAAAAATT
1 AAAAAAAATT
40011967 AAAAAAAA
1 AAAAAAAA
40011975 CAATACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:40017236 original size:49 final size:49
Alignment explanation
Indices: 40017102--40017297 Score: 277
Period size: 49 Copynumber: 3.9 Consensus size: 49
40017092 CCCTTTTAGT
* * *
40017102 CAAGCTACCTTCTTCACAAAGTGGCCTTCACATAATACCACACTTGTGAC
1 CAAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGTACCACACTTGTGAC
**
40017152 CAAAGCTATCT-TTCTTCACCAAGTGGCCTTCACATAGTACCATGCTTGTGAC
1 C-AAGCTATCTCTTC-TCA--AAGTGGCCTTCACATAGTACCACACTTGTGAC
*
40017204 CAAGCTATCTCTTCTCAAAGTGGCCTTCACATAGTACCACAATTGTGAC
1 CAAGCTATCTCTTCTCAAAGTGGCCTTCACATAGTACCACACTTGTGAC
*
40017253 CAAGCTATCTCTTCTCAAAGTGGCCTTCATATAGTACCACACTTG
1 CAAGCTATCTCTTCTCAAAGTGGCCTTCACATAGTACCACACTTG
40017298 AGTCACTAGT
Statistics
Matches: 131, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
49 75 0.57
50 4 0.03
51 19 0.15
52 33 0.25
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (49 bp):
CAAGCTATCTCTTCTCAAAGTGGCCTTCACATAGTACCACACTTGTGAC
Found at i:40017250 original size:101 final size:99
Alignment explanation
Indices: 40017102--40017291 Score: 285
Period size: 101 Copynumber: 1.9 Consensus size: 99
40017092 CCCTTTTAGT
*
40017102 CAAGCTACCTTCTTCACAAAGTGGCCTTCACATAATACCACACTTGTGACCAAAGCTATCT-TTC
1 CAAGCTACCTTCTTCACAAAGTGGCCTTCACATAATACCACAATTGTGACC-AAGCTATCTCTTC
40017166 TTCACCAAGTGGCCTTCACATAGTACCATGCTTGTGAC
65 -TCA--AAGTGGCCTTCACATAGTACCATGCTTGTGAC
* * *
40017204 CAAGCTATC-TCTTCTCAAAGTGGCCTTCACATAGTACCACAATTGTGACCAAGCTATCTCTTCT
1 CAAGCTACCTTCTTCACAAAGTGGCCTTCACATAATACCACAATTGTGACCAAGCTATCTCTTCT
*
40017268 CAAAGTGGCCTTCATATAGTACCA
66 CAAAGTGGCCTTCACATAGTACCA
40017292 CACTTGAGTC
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
98 21 0.26
100 12 0.15
101 41 0.50
102 8 0.10
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (99 bp):
CAAGCTACCTTCTTCACAAAGTGGCCTTCACATAATACCACAATTGTGACCAAGCTATCTCTTCT
CAAAGTGGCCTTCACATAGTACCATGCTTGTGAC
Found at i:40019038 original size:29 final size:29
Alignment explanation
Indices: 40018996--40019281 Score: 209
Period size: 29 Copynumber: 9.8 Consensus size: 29
40018986 TGTGCTAACA
40018996 ATGGTCGTAACCATCCCTTTTCATATTCG
1 ATGGTCGTAACCATCCCTTTTCATATTCG
* *
40019025 ATGGTCGTCACCATCCCTTTTCATTAATCG
1 ATGGTCGTAACCATCCCTTTTCA-TATTCG
* * * *
40019055 ATGGTTGTCACTATCCCTTTTCATATTTG
1 ATGGTCGTAACCATCCCTTTTCATATTCG
* * * *
40019084 ATAGTCGAAACTATCCCTTTTCATAGTCG
1 ATGGTCGTAACCATCCCTTTTCATATTCG
* * * * *
40019113 ATAGTTGAAACTATCCCTTTTCATATACG
1 ATGGTCGTAACCATCCCTTTTCATATTCG
** * *
40019142 ATGGTCGGCACCATTCCTTTTCAT-TGTTG
1 ATGGTCGTAACCATCCCTTTTCATAT-TCG
* * * *
40019171 ATGGTCATCACCATTCGTTTTCATAGTT-G
1 ATGGTCGTAACCATCCCTTTTCATA-TTCG
** *
40019200 ATGGTCGTTGCCATCCCTTTTCATAATCG
1 ATGGTCGTAACCATCCCTTTTCATATTCG
* * * * * *
40019229 ATAGTCGAAACTATCCATTTTCATAGTCA
1 ATGGTCGTAACCATCCCTTTTCATATTCG
* *
40019258 ATGGTC-AAATCCATCTCTTTTCAT
1 ATGGTCGTAA-CCATCCCTTTTCAT
40019282 TGATCGATGA
Statistics
Matches: 207, Mismatches: 44, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
28 5 0.02
29 174 0.84
30 27 0.13
31 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (29 bp):
ATGGTCGTAACCATCCCTTTTCATATTCG
Found at i:40029335 original size:29 final size:29
Alignment explanation
Indices: 40029292--40029492 Score: 183
Period size: 29 Copynumber: 6.9 Consensus size: 29
40029282 AGTGTGCTAA
*
40029292 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
40029321 CGATGGTTGTCACCATCCCTTTTCATTAAT
1 CGATGGTCGTCACCATCCCTTTTCA-TATT
40029351 CGATGGTCGTCACCATCCC-TTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* * *
40029380 -GATGGTCGTCATCATCCATTTTGATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* * ** *
40029408 TGATAGTCGAAACTATCCCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* *** ** *
40029438 -GATAGTCAAAATTATCCCTTTTCATATA
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
40029466 CGATGGTTGTCACCATCCCTTTTCATA
1 CGATGGTCGTCACCATCCCTTTTCATA
40029493 ATATAATCAA
Statistics
Matches: 141, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
28 21 0.15
29 97 0.69
30 23 0.16
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:40029538 original size:56 final size:58
Alignment explanation
Indices: 40029417--40029547 Score: 153
Period size: 56 Copynumber: 2.3 Consensus size: 58
40029407 TTGATAGTCG
* * * * *
40029417 AAACTATCCCTTTTCATAGTTGATAGTCAAAATTATCCCTTTTCATATACGATGGTTG
1 AAACCATCCCTTTTCATAGATGATAATCAAAACTATCCCTTTTCATATACGATGGTTC
**
40029475 TCACCATCCCTTTTCATA-AT-ATAATCAAAACTATCCCTTTTCATAGT-CGATGG-TC
1 AAACCATCCCTTTTCATAGATGATAATCAAAACTATCCCTTTTCATA-TACGATGGTTC
40029530 AAATCCATCCCTTTTCAT
1 AAA-CCATCCCTTTTCAT
40029548 TGATCGATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
55 2 0.03
56 43 0.69
57 2 0.03
58 15 0.24
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (58 bp):
AAACCATCCCTTTTCATAGATGATAATCAAAACTATCCCTTTTCATATACGATGGTTC
Found at i:40029541 original size:29 final size:29
Alignment explanation
Indices: 40029292--40029556 Score: 171
Period size: 29 Copynumber: 9.2 Consensus size: 29
40029282 AGTGTGCTAA
* *
40029292 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAGT
* ** *
40029321 CGATGGTTGTCACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAGT
**
40029351 CGATGGTCGTCACCATCCC-TTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAGT
* ** * * * *
40029379 TGATGGTCGTCATCATCCATTTTGATATT
1 CGATGGTCGAAACCATCCCTTTTCATAGT
* * *
40029408 TGATAGTCGAAACTATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAGT
* * * **
40029437 TGATAGTCAAAATTATCCCTTTTCATA-T
1 CGATGGTCGAAACCATCCCTTTTCATAGT
* ** *
40029465 ACGATGGTTGTCACCATCCCTTTTCATAAT
1 -CGATGGTCGAAACCATCCCTTTTCATAGT
** * *
40029495 --ATAATCAAAACTATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAGT
*
40029522 CGATGGTC-AAATCCATCCCTTTTCATTGAT
1 CGATGGTCGAAA-CCATCCCTTTTCATAG-T
40029552 CGATG
1 CGATG
40029557 ATCGTCGATA
Statistics
Matches: 188, Mismatches: 40, Indels: 15
0.77 0.16 0.06
Matches are distributed among these distances:
27 19 0.10
28 23 0.12
29 118 0.63
30 28 0.15
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAGT
Found at i:40033197 original size:48 final size:46
Alignment explanation
Indices: 40033079--40033198 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 46
40033069 TGATATGTGT
* * **
40033079 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACAAGG
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCATCGAGACAAAA
* * * *
40033125 GCCAGTGTAAGACATGTCTAGGACATACATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCATCGAGACA-A-AA
* *
40033173 GCTAGTGTAAGACTTGTTTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
40033199 GGCGTCAGCT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 37 0.62
47 1 0.02
48 22 0.37
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCAGCATCGAGACAAAA
Found at i:40033278 original size:49 final size:48
Alignment explanation
Indices: 40033219--40033390 Score: 159
Period size: 49 Copynumber: 3.5 Consensus size: 48
40033209 TATTGTGTGT
* *
40033219 CAGTGTAAGACCTATCTGGGACATGGCATTGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CCGATAGATGAAAGC
* * * * *
40033268 CAGTGTAAGACCTATCTGGGACACGACATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACC-CGATAGATGAAAGC
* * * ** **
40033317 CAGTGTACGACCTGTCTAGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CCGATAGATGAAAGC
*
40033364 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-TATCTGGGACATGG
40033391 TGTCGGCACC
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
47 15 0.15
48 14 0.14
49 70 0.71
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCCGATAGATGAAAGC
Found at i:40038852 original size:32 final size:32
Alignment explanation
Indices: 40038816--40038880 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
40038806 CATTATAAAC
* *
40038816 TTATAAATTGATTACTTGAATTCAATAACTCA
1 TTATAAATTAATTAATTGAATTCAATAACTCA
* **
40038848 TTATAAATTAATTAATTTAATTTGATAACTCA
1 TTATAAATTAATTAATTGAATTCAATAACTCA
40038880 T
1 T
40038881 ATTGATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (32 bp):
TTATAAATTAATTAATTGAATTCAATAACTCA
Found at i:40038919 original size:145 final size:145
Alignment explanation
Indices: 40038649--40039052 Score: 690
Period size: 145 Copynumber: 2.8 Consensus size: 145
40038639 TAAATATTTT
* * * *
40038649 TACTATGAATTTGGAACATCATAAATTTACAAATTGATTACTTGAATTTAATAACTC---AT-AA
1 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
* * *
40038710 TTAATTAATTTAATTTGATAACTCATACTGATTAATTGAGCCTGTTAGATTTATGATTGATCATG
66 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTAGGATTAATCATG
40038775 TGTAAGAATGTATTC
131 TGTAAGAATGTATTC
*
40038790 TACTATGAATTCGGAACATTATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
1 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
*
40038855 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGCTAGATTTAGGATTAATCATG
66 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTAGGATTAATCATG
40038920 TGTAAGAATGTATTC
131 TGTAAGAATGTATTC
40038935 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
1 TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
*
40039000 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTGTTAGATTTA
66 TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTA
40039053 TGAACTTTAT
Statistics
Matches: 247, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
141 52 0.21
144 2 0.01
145 193 0.78
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (145 bp):
TACTATGAATTCGGAACATCATAAACTTATAAATTGATTACTTGAATTCAATAACTCATTATAAA
TTAATTAATTTAATTTGATAACTCATATTGATTAATTGAGCCTGTTAGATTTAGGATTAATCATG
TGTAAGAATGTATTC
Found at i:40038997 original size:32 final size:32
Alignment explanation
Indices: 40038961--40039025 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
40038951 CATCATAAAC
* *
40038961 TTATAAATTGATTACTTGAATTCAATAACTCA
1 TTATAAATTAATTAATTGAATTCAATAACTCA
* **
40038993 TTATAAATTAATTAATTTAATTTGATAACTCA
1 TTATAAATTAATTAATTGAATTCAATAACTCA
40039025 T
1 T
40039026 ATTGATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (32 bp):
TTATAAATTAATTAATTGAATTCAATAACTCA
Found at i:40049754 original size:39 final size:39
Alignment explanation
Indices: 40049705--40049781 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
40049695 ACAGGTGTCA
*
40049705 TGTGACCAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
*
40049744 TGTGAACAGGCTGGGTCAAGTTTGTCTGGTTCAAATTC
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTC
40049782 ATCCAGCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (39 bp):
TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
Found at i:40067878 original size:15 final size:16
Alignment explanation
Indices: 40067854--40067888 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
40067844 ATTAACTTTT
*
40067854 AATTTTATAA-TATTA
1 AATTTAATAATTATTA
40067869 AATTTAATAATTATTA
1 AATTTAATAATTATTA
40067885 AATT
1 AATT
40067889 ATTAAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTAATAATTATTA
Found at i:40068366 original size:20 final size:20
Alignment explanation
Indices: 40068343--40068381 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
40068333 TTACATTAGT
* *
40068343 TTTTCAATATATTAATTAAA
1 TTTTAAATAAATTAATTAAA
*
40068363 TTTTAAATAAATTTATTAA
1 TTTTAAATAAATTAATTAA
40068382 CCCTGTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAAATAAATTAATTAAA
Found at i:40070305 original size:40 final size:39
Alignment explanation
Indices: 40070196--40070327 Score: 117
Period size: 40 Copynumber: 3.4 Consensus size: 39
40070186 AACTTCGAGT
* * * *
40070196 CGATGAGACACTAGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACT-GGTGTCAAATTATTACTTCGG-TTTATC
* * *
40070237 CGATGAGGCACTGG-GTACCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGTGT-CAAATTATTACTTCGGTTTATC
**
40070274 CGATGAGACACTCGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACT-GGTGTCAAATTATTACTTCGGTTTATC
*
40070314 CGATGAGGCACTGG
1 CGATGAGACACTGG
40070328 GTGCCAAACT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
37 14 0.19
38 13 0.18
39 8 0.11
40 27 0.37
41 11 0.15
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (39 bp):
CGATGAGACACTGGTGTCAAATTATTACTTCGGTTTATC
Found at i:40082132 original size:16 final size:17
Alignment explanation
Indices: 40082107--40082151 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
40082097 TCAATTAGGG
40082107 TTAGGGTTTTAAGAATT
1 TTAGGGTTTTAAGAATT
*
40082124 TTA-GGTTTTTA-AATT
1 TTAGGGTTTTAAGAATT
40082139 TTAGGGTTTTAAG
1 TTAGGGTTTTAAG
40082152 GAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 14 0.58
17 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGGGTTTTAAGAATT
Found at i:40082140 original size:15 final size:15
Alignment explanation
Indices: 40082107--40082150 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
40082097 TCAATTAGGG
40082107 TTAGGGTTTTAAGAATT
1 TTAGGGTTTT-A-AATT
*
40082124 TTAGGTTTTTAAATT
1 TTAGGGTTTTAAATT
40082139 TTAGGGTTTTAA
1 TTAGGGTTTTAA
40082151 GGAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.60
16 1 0.04
17 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:40082262 original size:96 final size:97
Alignment explanation
Indices: 40082138--40082377 Score: 283
Period size: 96 Copynumber: 2.5 Consensus size: 97
40082128 GTTTTTAAAT
* * * ** *
40082138 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
* *
40082202 CT-AATTTT-AAAAAATTAGATTATGG-TTTAGTG
65 -TAAATTTTAAAAAAAATAGATTA-GGATTTAGGG
* *
40082234 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAT
40082299 AAATTTTAAAAAAAATAGATTAGGATTTTAGGG
66 AAATTTTAAAAAAAATAGATTAGGA-TTTAGGG
* * *
40082332 TTTAGGGTATTT-ATGAAAAAATTCAAATAAATTAGGGTTTGGGGTT
1 TTTAGGGTTTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTAGGGTT
40082378 TAGGGTTTAG
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
95 1 0.01
96 55 0.44
97 29 0.23
98 39 0.31
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (97 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAT
AAATTTTAAAAAAAATAGATTAGGATTTAGGG
Found at i:40082903 original size:125 final size:126
Alignment explanation
Indices: 40082429--40082954 Score: 783
Period size: 126 Copynumber: 4.2 Consensus size: 126
40082419 AAAAGCTTCT
** * * * *
40082429 ACGTGGACACTCTTTTGCTATAGTAGTCTCTG-AAAAATAAATTTGAGAAGACGTGCCTGCGTAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
40082493 ATAGTGTCAAAAACGCTTCAAGCAGGATGAATTGTT-AGCAAAAGTATTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATT-TTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
40082554 ACGTGGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
40082619 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
40082680 ACTTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGACGTGTCTGCGCAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
40082745 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAA-AAACTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACT-GAAAGAAGCTCCC
* * **
40082806 ACGTGGATGCTCTTTTGCTACAATGGTCTCTG-AAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
40082870 ATAGTGTCAAAAATGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
*
40082931 ACGTGGACGCTCTTTTGCTACAGT
1 ACGTGGATGCTCTTTTGCTACAGT
40082955 GTTTTCTGAA
Statistics
Matches: 363, Mismatches: 32, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
124 6 0.02
125 130 0.36
126 221 0.61
127 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (126 bp):
ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:40082965 original size:251 final size:252
Alignment explanation
Indices: 40082429--40082954 Score: 792
Period size: 251 Copynumber: 2.1 Consensus size: 252
40082419 AAAAGCTTCT
* * * *
40082429 ACGTGGACACTCTTTTGCTATAGTAGTCTCTG-AAAAATAAATTTGAGAAGACGTGCCTGCGTAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTAAGAAGACGTGCCTGCGCAA
* *
40082493 ATAGTGTCAAAAACGCTTCAAGCAGGATGAATTGTTAGCAAAAGTATTGAAAGAAGCTCCCACGT
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGAATTGTTAGCAAAAGTATGGAAAGAAACTCCCACGT
* **
40082558 GGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAAATAG
131 GGATGCTCTTTTGCTACAATAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAAATAG
*
40082623 TGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
196 TGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
40082680 ACTTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTAAGAAGACGTGCCTGCGCAA
* *
40082745 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATT-TTCAGCAAAATTACTGGAAA-AAACTCCCA
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGAATTGTT-AGCAAAAGTA-TGGAAAGAAACTCCCA
* * *
40082807 CGTGGATGCTCTTTTGCTACAATGGTCTCTG-AAAAATAATTTTGAGAAGACGTGTCTGCATAAA
128 CGTGGATGCTCTTTTGCTACAATAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAAA
* * *
40082871 TAGTGTCAAAAATGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
193 TAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
40082931 ACGTGGACGCTCTTTTGCTACAGT
1 ACGTGGACGCTCTTTTGCTACAGT
40082955 GTTTTCTGAA
Statistics
Matches: 247, Mismatches: 24, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
251 138 0.56
252 102 0.41
253 7 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (252 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTAAGAAGACGTGCCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGAATTGTTAGCAAAAGTATGGAAAGAAACTCCCACGT
GGATGCTCTTTTGCTACAATAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAAATAG
TGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:40086071 original size:45 final size:45
Alignment explanation
Indices: 40086019--40086108 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
40086009 AAATTTGCAT
40086019 AAATGACAGAAATATTAAATAATATTTAAATATTAAATTTAACAC
1 AAATGACAGAAATATTAAATAATATTTAAATATTAAATTTAACAC
*
40086064 AAATGACAGAAATCTTAAATAATATTTAAATATTAAATTTAACAC
1 AAATGACAGAAATATTAAATAATATTTAAATATTAAATTTAACAC
40086109 TTACCATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (45 bp):
AAATGACAGAAATATTAAATAATATTTAAATATTAAATTTAACAC
Found at i:40086272 original size:22 final size:22
Alignment explanation
Indices: 40086260--40086309 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
40086250 TAACGAGAGT
40086260 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
40086282 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
40086302 TTTGAGAG
1 TTTGAGAG
40086310 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:40086317 original size:11 final size:10
Alignment explanation
Indices: 40086260--40086317 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
40086250 TAACGAGAGT
40086260 TTTGAGAGGAA
1 TTTGAGA-GAA
*
40086271 TTTAAGAGAAA
1 TTTGAGAG-AA
40086282 TTTGAGAG-A
1 TTTGAGAGAA
40086291 TTTGAGAGGAA
1 TTTGAGA-GAA
40086302 TTTGAGAGAA
1 TTTGAGAGAA
40086312 TATTGA
1 T-TTGA
40086318 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:40086323 original size:31 final size:31
Alignment explanation
Indices: 40086260--40086323 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
40086250 TAACGAGAGT
*
40086260 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
40086291 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
40086322 TT
1 TT
40086324 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:40092439 original size:19 final size:21
Alignment explanation
Indices: 40092411--40092454 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
40092401 GTCTCAATAC
40092411 ACAATATGTCA-A-TCTCGAG
1 ACAATATGTCATAGTCTCGAG
*
40092430 ACAATTTGTCATATGTCTCGAG
1 ACAATATGTCATA-GTCTCGAG
40092452 ACA
1 ACA
40092455 TACTCAACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
22 10 0.48
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (21 bp):
ACAATATGTCATAGTCTCGAG
Found at i:40096571 original size:16 final size:16
Alignment explanation
Indices: 40096538--40096571 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
40096528 CCTTTTTGTT
* *
40096538 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
40096554 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
40096570 AA
1 AA
40096572 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:40102078 original size:54 final size:54
Alignment explanation
Indices: 40102014--40102121 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
40102004 ATATAATTCA
40102014 AACAAGAAGGGATAAGATCCCAAACAATACGACTTCCATATAATAAAGCTACCC
1 AACAAGAAGGGATAAGATCCCAAACAATACGACTTCCATATAATAAAGCTACCC
40102068 AACAAGAAGGGATAAGATCCCAAACAATACGACTTCCATATAATAAAGCTACCC
1 AACAAGAAGGGATAAGATCCCAAACAATACGACTTCCATATAATAAAGCTACCC
40102122 TTACTAAAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.46, C:0.24, G:0.13, T:0.17
Consensus pattern (54 bp):
AACAAGAAGGGATAAGATCCCAAACAATACGACTTCCATATAATAAAGCTACCC
Found at i:40104366 original size:112 final size:112
Alignment explanation
Indices: 40104169--40104394 Score: 425
Period size: 112 Copynumber: 2.0 Consensus size: 112
40104159 GATGCATACT
40104169 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
1 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
40104234 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
66 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
* *
40104281 GAACCAGTCTTTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAGAACTCGATATTG
1 GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
*
40104346 ACCATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
66 AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
40104393 GA
1 GA
40104395 GTATAGAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (112 bp):
GAACCAGTCTCTATCTCCATCTTTGTAAATGGTGCTAACAATATCCTCATCAAAACTCGATATTG
AACATGTGAACACTTTGAAAAATCATTAGACCCAGAGCTCAAGAATA
Found at i:40107001 original size:16 final size:16
Alignment explanation
Indices: 40106976--40107006 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40106966 CACCACTTGG
*
40106976 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
40106992 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
40107007 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:40108948 original size:21 final size:21
Alignment explanation
Indices: 40108924--40108964 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
40108914 ATTTGCTCAA
* *
40108924 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
40108945 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
40108965 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:40115333 original size:61 final size:61
Alignment explanation
Indices: 40115213--40115334 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 61
40115203 TTGATAAAAG
* * * * * *
40115213 AAAGCGATAACTGGACATAACTTCAGTTTCTAGCATTGTTAGTAATTTACTGGTGTGTATC
1 AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
* * * * *
40115274 AAAGTGATAACTGGACACAGCTTCAGTTTCAACCATTGTTACTAGTATATTAGTTTGTATC
1 AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
40115335 TATATGTGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (61 bp):
AAAGCGATAACTGGACACAACTTCAGTTTCAACCATTGTTACTAATATACTAGTGTGTATC
Found at i:40117607 original size:27 final size:27
Alignment explanation
Indices: 40117552--40117607 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
40117542 ATTTCCCCTT
* *
40117552 TACTAGTAAAGATTTTAAGCAGACATG
1 TACTAGGAAAGATTTTAAGCACACATG
* *
40117579 TACTAGGAAAGGTTTTAAGCACACGTG
1 TACTAGGAAAGATTTTAAGCACACATG
40117606 TA
1 TA
40117608 ATCAAGACGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (27 bp):
TACTAGGAAAGATTTTAAGCACACATG
Found at i:40141584 original size:48 final size:48
Alignment explanation
Indices: 40141367--40141596 Score: 198
Period size: 48 Copynumber: 5.0 Consensus size: 48
40141357 CACATAGTAA
* * *
40141367 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT--CTCATATC
* * *
40141417 GATGCCGAT---A-G-CCCAG-CTATGGTCTTACA--CGATGTC-TCAT-
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCTCAT-ATC
* ** *
40141457 -AT--CAATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
* * * *
40141502 GATGGCAATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
*
40141550 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATATCATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATAT
40141597 AACCCTAATG
Statistics
Matches: 142, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
37 3 0.02
39 2 0.01
40 2 0.01
41 4 0.03
42 16 0.11
43 4 0.03
44 5 0.04
45 17 0.12
46 2 0.01
47 1 0.01
48 78 0.55
50 8 0.06
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
Found at i:40142617 original size:38 final size:38
Alignment explanation
Indices: 40142545--40142720 Score: 237
Period size: 38 Copynumber: 4.6 Consensus size: 38
40142535 GCACAAAACT
* *
40142545 TGCGGGACTTTAAGCTCGGATATAATACTAGCACTAAGCC
1 TGCGGGA-TTTAA-CCCGGATATAATACTAGCACGAAGCC
* * *
40142585 TGCGGGATTTAACCCTGATATAATACTGGCACTAAGCC
1 TGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
* *
40142623 TGCGGGATTTAACCCGGATATACTACCA-CTACGAAGCC
1 TGCGGGATTTAACCCGGATATAATACTAGC-ACGAAGCC
* *
40142661 TGCGGGATTTAACCCGGATATAATACCAGTACGAAGCC
1 TGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
40142699 TGCGGGATTTAACCCGGATATA
1 TGCGGGATTTAACCCGGATATA
40142721 TATCAAATAT
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.01
38 111 0.90
39 5 0.04
40 7 0.06
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (38 bp):
TGCGGGATTTAACCCGGATATAATACTAGCACGAAGCC
Found at i:40146503 original size:40 final size:40
Alignment explanation
Indices: 40146455--40146660 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
40146445 GGACTAAGAT
*
40146455 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
40146495 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
40146535 CCGAAGGCATTTGTTCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
40146575 TCAAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * * *
40146615 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GACTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
40146654 CCGAAGG
1 CCGAAGG
40146661 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 14 0.09
40 139 0.91
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:40164308 original size:27 final size:27
Alignment explanation
Indices: 40164256--40164396 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
40164246 GTGACGAAGT
40164256 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
* *
40164283 CACAAGAACAGATATATGTGGTAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
40164310 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
40164337 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
40164364 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
40164391 CACCAG
1 CACCAG
40164397 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 11 0.11
27 87 0.87
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:40164394 original size:54 final size:54
Alignment explanation
Indices: 40164256--40164396 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
40164246 GTGACGAAGT
* * *
40164256 CACCAGATACAGAT-ATTGTGGCAGAGCCACAAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
40164310 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
40164364 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
40164397 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:40166050 original size:26 final size:26
Alignment explanation
Indices: 40166020--40166101 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
40166010 TGAAATTCCC
40166020 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40166046 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40166072 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40166098 ATCA
1 ATCA
40166102 ATTTGTATTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40167086 original size:14 final size:14
Alignment explanation
Indices: 40167067--40167100 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
40167057 GTGTAAATAT
*
40167067 GCAAAAGCTTAGGG
1 GCAAAAGCTTAAGG
*
40167081 GCAAAAGTTTAAGG
1 GCAAAAGCTTAAGG
40167095 GCAAAA
1 GCAAAA
40167101 TCGTACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (14 bp):
GCAAAAGCTTAAGG
Found at i:40167638 original size:53 final size:53
Alignment explanation
Indices: 40167457--40167663 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
40167447 ATTAGGGTTT
* * * *
40167457 AAGGATACCATGTATGACCATGCCAAGACATGGCATTGGTAAGTT-TTACAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGT--AAGGA
* * * * * * * *
40167511 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCG-TAAGGA
** * * * *
40167566 AAAAATCCCACGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCGTAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGTAAGGA
* * *
40167619 AAGGATACCACGTAAGACCATGTCAAGACTTGGAAATGGTAAGTT
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
40167664 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 42 0.35
54 39 0.32
55 38 0.32
57 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGTAAGGA
Done.