Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 195 of 318
Found at i:61410623 original size:10 final size:10
Alignment explanation
Indices: 61410596--61410644 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
61410586 TCCTCATACT
61410596 ATATTATATA
1 ATATTATATA
* *
61410606 ATACTATATC
1 ATATTATATA
61410616 ATATTATATA
1 ATATTATATA
61410626 ATA-TAT-TA
1 ATATTATATA
61410634 ATAGTTATATA
1 ATA-TTATATA
61410645 TAATAGAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.16
9 3 0.09
10 22 0.69
11 2 0.06
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (10 bp):
ATATTATATA
Found at i:61410723 original size:156 final size:162
Alignment explanation
Indices: 61410457--61410771 Score: 405
Period size: 156 Copynumber: 2.0 Consensus size: 162
61410447 TTTATTATAA
61410457 TATATAATATAATAATAGTTATATAGAATAATAGTACATTATATATTAATTATCATGTATTATTG
1 TATATAATATAATAATAGTTATATAGAATAATAGTACATTATATATTAATTATCA-GTATTATTG
* * * * *
61410522 TTTATTATTATAATAATTAAAATATGCATTGAGTCCCTATACTTTTTGTACATTTGAAGGTTAAT
65 TTTATTATTATAATAATTAAAATATGCATTAAATCCCTATACTTTTCGTACATTTGAAAGTTAAC
61410587 CCT-CATACTATATTATATAATACTATATCATAT
130 CCTCCA-ACTATATTATATAATACTATATCATAT
* * *
61410620 TATATAATATATTAATAGTTATATATAATAGA-AGTACA-T-TATA-T-GTTA-CA-TATTATTG
1 TATATAATATAATAATAGTTATATAGAATA-ATAGTACATTATATATTAATTATCAGTATTATTG
* * * * *
61410678 TTTATTATTATACTAATTGAAATATGC-TCTAAATTCTTATACTTTTCGTACATTTGAAAGTTAG
65 TTTATTATTATAATAATTAAAATATGCAT-TAAATCCCTATACTTTTCGTACATTTGAAAGTTAA
*
61410742 CCCTCCAACTATATTATATAATGCTATATC
129 CCCTCCAACTATATTATATAATACTATATC
61410772 GCATCGTATA
Statistics
Matches: 135, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
155 1 0.01
156 86 0.64
157 2 0.01
158 2 0.01
159 3 0.02
160 1 0.01
161 4 0.03
162 1 0.01
163 34 0.25
164 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (162 bp):
TATATAATATAATAATAGTTATATAGAATAATAGTACATTATATATTAATTATCAGTATTATTGT
TTATTATTATAATAATTAAAATATGCATTAAATCCCTATACTTTTCGTACATTTGAAAGTTAACC
CTCCAACTATATTATATAATACTATATCATAT
Found at i:61415309 original size:23 final size:22
Alignment explanation
Indices: 61415259--61415301 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
61415249 TGTTTTGGTT
*
61415259 ATTTAA-TTTTAATTTATTATA
1 ATTTAACTATTAATTTATTATA
61415280 ATTTAACTATTAATGTTATTAT
1 ATTTAACTATTAAT-TTATTAT
61415302 TTTGTAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTAACTATTAATTTATTATA
Found at i:61416912 original size:25 final size:25
Alignment explanation
Indices: 61416878--61416927 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61416868 ATGAAATTTA
61416878 ACTAGTTCATGAATATTAGGAGATG
1 ACTAGTTCATGAATATTAGGAGATG
61416903 ACTAGTTCATGAATATTAGGAGATG
1 ACTAGTTCATGAATATTAGGAGATG
61416928 TTATAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (25 bp):
ACTAGTTCATGAATATTAGGAGATG
Found at i:61423535 original size:42 final size:42
Alignment explanation
Indices: 61423488--61423639 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
61423478 CATAGGATTT
*
61423488 TCGATATGTGTTCTCATGTAAGACCATGTCT-GGACGTTGACA
1 TCGATATGTGAT-TCATGTAAGACCATGTCTAGGACGTTGACA
* * **
61423530 TCGATATGTGATTACGTGTAAGACCATGTCTGGGATATTGACA
1 TCGATATGTGATT-CATGTAAGACCATGTCTAGGACGTTGACA
* * * * *
61423573 TC-ATATTTGATCCGTGTAAGACCCTGTCTAGGACAG-TGGCA
1 TCGATATGTGATTCATGTAAGACCATGTCTAGGAC-GTTGACA
61423614 TCGATATGTGATTGCATGTAAGACCA
1 TCGATATGTGATT-CATGTAAGACCA
61423640 CGTTTGGGAA
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 26 0.29
42 43 0.48
43 21 0.23
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TCGATATGTGATTCATGTAAGACCATGTCTAGGACGTTGACA
Found at i:61423601 original size:41 final size:42
Alignment explanation
Indices: 61423504--61423639 Score: 159
Period size: 42 Copynumber: 3.2 Consensus size: 42
61423494 TGTGTTCTCA
*
61423504 TGTAAGACCATGTCTGGACGTTGACATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGACATTGACATCGATATGTGATTACG
* * *
61423546 TGTAAGACCATGTCTGGGATATTGACATC-ATATTTGA-TCCG
1 TGTAAGACCATGTCT-GGACATTGACATCGATATGTGATTACG
* * * * *
61423587 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTGCA
1 TGTAAGACCATGTCT-GGACATTGACATCGATATGTGATTACG
61423630 TGTAAGACCA
1 TGTAAGACCA
61423640 CGTTTGGGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 27 0.35
42 29 0.37
43 22 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGACATTGACATCGATATGTGATTACG
Found at i:61435904 original size:41 final size:40
Alignment explanation
Indices: 61435852--61435931 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 40
61435842 CATGCTATCA
** *
61435852 CATATCGATGCCTCTGTCCCAGACAGGGTCTTATACGAAT
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAT
* *
61435892 CATATACGATGCCAATGTCCTAGACATGGTCTTACACGAA
1 CATAT-CGATGCCAATGTCCCAGACAGGGTCTTACACGAA
61435932 ATCACGCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
CATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAT
Found at i:61446411 original size:40 final size:42
Alignment explanation
Indices: 61446318--61446550 Score: 337
Period size: 42 Copynumber: 5.6 Consensus size: 42
61446308 AGTCGATATA
*
61446318 TAGTAATATATATATCTGGGTTAAATCCCGCAGGCTTCGTGC
1 TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGC
* * ** *
61446360 TGGTAATATATATATCCGGTTTAAATTTCGCAAGCTTCGTGC
1 TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGC
*
61446402 TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCATGC
1 TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGC
* *
61446444 TAGTAATATATATATCCGGGTTAAATCCTGAAGGCTTCGTGC
1 TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGC
*
61446486 TGGT-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGT-C
1 TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGC
*
61446525 TATTAATATATATATCCGGGCTTAAA
1 TAGTAATATATATATCCGGG-TTAAA
61446551 GTTCCGTAGG
Statistics
Matches: 168, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.02
40 32 0.19
41 14 0.08
42 119 0.71
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (42 bp):
TAGTAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGC
Found at i:61456624 original size:37 final size:37
Alignment explanation
Indices: 61456562--61456640 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
61456552 TTATTACGAA
* ** *
61456562 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
61456599 GTCTTACCCGGAGAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
61456636 GTCTT
1 GTCTT
61456641 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:61457284 original size:47 final size:47
Alignment explanation
Indices: 61456761--61457281 Score: 801
Period size: 47 Copynumber: 11.0 Consensus size: 47
61456751 CTTCGGGACT
* * * * * *
61456761 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
61456808 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
61456857 TATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
61456903 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
61456952 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61457001 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
61457048 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
61457095 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61457142 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61457189 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
61457236 TATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
61457282 TTACTATCAT
Statistics
Matches: 445, Mismatches: 24, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
46 35 0.08
47 278 0.62
48 10 0.02
49 122 0.27
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:61460795 original size:40 final size:40
Alignment explanation
Indices: 61460725--61461004 Score: 416
Period size: 40 Copynumber: 6.9 Consensus size: 40
61460715 CGAATACACG
* * * * * *
61460725 TCACCAGCATGATTGCTCTTCGAGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
61460765 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
61460805 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
61460845 TCACTAGCACGAACTGCTTGCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAA-TGC-T-CTTCGGGACTTAGCCCGGATACA
*
61460888 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
61460928 TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
61460968 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
61461005 TTAGTAATTC
Statistics
Matches: 217, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
40 176 0.81
41 4 0.02
42 4 0.02
43 33 0.15
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:61460961 original size:123 final size:120
Alignment explanation
Indices: 61460738--61461004 Score: 408
Period size: 123 Copynumber: 2.2 Consensus size: 120
61460728 CCAGCATGAT
* * * * *
61460738 TGCTCTTCGAGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* * *
61460803 CATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66 CATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
61460858 CTGCTTGCTTCGGGACTTAGCCCGGATACATCACCAGCATGAATGCTCTTCGGGACTTAGCCCGG
1 -TGC-T-CTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGG
*
61460923 ATACATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAA
63 ATACATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
61460981 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
61461005 TTAGTAATTC
Statistics
Matches: 133, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
120 20 0.15
121 4 0.03
122 4 0.03
123 105 0.79
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:61461029 original size:40 final size:40
Alignment explanation
Indices: 61460742--61461079 Score: 173
Period size: 40 Copynumber: 8.4 Consensus size: 40
61460732 CATGATTGCT
* * * *
61460742 CTTCGAGATTTAGCACGGATATA-TC-ACTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCAATTAGCAC-AATGC
* * ** *
61460781 TCTTCGGAACTTAGCCCGGATACA-TC-GCTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
*
61460821 TCTTCGGGACTTAGCCCGGATATA-TC-ACTAGCACGAACTGC
1 -CTTCGGGACTTAGCCCGGATATAGTCAATTAGCAC-AA-TGC
* ** *
61460862 TTGCTTCGGGACTTAGCCCGGATACA-TC-ACCAGCATGAATGC
1 ---CTTCGGGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * *
61460904 TCTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * * *
61460944 TCTTCGAGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* *
61460984 TCTTCGGGACTTAGCCCGGATTTAGT-AATTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * * * *
61461025 CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAATTAGCACAATGC
61461065 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
61461080 TGGACATCAT
Statistics
Matches: 254, Mismatches: 33, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.01
40 193 0.76
41 23 0.09
42 3 0.01
43 32 0.13
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCAATTAGCACAATGC
Found at i:61461075 original size:120 final size:123
Alignment explanation
Indices: 61460742--61461079 Score: 341
Period size: 123 Copynumber: 2.8 Consensus size: 123
61460732 CATGATTGCT
* * * * * * * *
61460742 CTTCGAGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
1 CTTCGGGACTTAGCCCGGATACATAACCAGCACCAATGCTCTTCGGGACTTAGCCCGGATACATC
* * * *
61460807 GCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAACTGCTTG
66 ACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAACTGCTTG
* **
61460865 CTTCGGGACTTAGCCCGGATACATCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
1 CTTCGGGACTTAGCCCGGATACATAACCAGCACCAATGCTCTTCGGGACTTAGCCCGGATACATC
* * * *
61460930 ACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAA-TGC-T-
66 ACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAACTGCTTG
** * * *
61460985 CTTCGGGACTTAGCCCGGATTTAGTAATTC-GCACCAATGC-CTTC-GGATCTTAGTCTGGATAT
1 CTTCGGGACTTAGCCCGGATACA-TAA-CCAGCACCAATGCTCTTCGGGA-CTTAGCCCGGATA-
**
61461047 GGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCC
62 CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCC
61461080 TGGACATCAT
Statistics
Matches: 186, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
119 3 0.02
120 50 0.27
121 19 0.10
122 9 0.05
123 105 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (123 bp):
CTTCGGGACTTAGCCCGGATACATAACCAGCACCAATGCTCTTCGGGACTTAGCCCGGATACATC
ACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAACTGCTTG
Found at i:61461429 original size:29 final size:29
Alignment explanation
Indices: 61461390--61461466 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
61461380 CTTAATAATC
*
61461390 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
61461420 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
61461449 AGCCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
61461467 TGAAAACCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:61463379 original size:37 final size:37
Alignment explanation
Indices: 61463317--61463395 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
61463307 TTATTACGAA
* ** *
61463317 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
61463354 GTCTTACCCGGAGAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
61463391 GTCTT
1 GTCTT
61463396 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:61464087 original size:47 final size:47
Alignment explanation
Indices: 61463516--61464084 Score: 904
Period size: 47 Copynumber: 12.0 Consensus size: 47
61463506 CTTCGGGACT
* * * * * *
61463516 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
61463563 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
61463612 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
61463659 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
61463706 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
61463755 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61463804 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61463851 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
61463898 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61463945 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
61463992 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
61464039 TATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
61464085 TTACTATCAT
Statistics
Matches: 496, Mismatches: 22, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 363 0.73
49 133 0.27
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:61472659 original size:40 final size:40
Alignment explanation
Indices: 61472604--61472792 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
61472594 TGCTTTCAGA
* * **
61472604 GGTACCGAAATACAAATAGGGGCATGTATGTGCATTTAGG
1 GGTACCGAAGTACAAACAGGGGCACATATGTGCATTTAGG
* ** * *
61472644 GGTACCGAAGTACAAATAGGGGCATGTATGTGCGTTTAGA
1 GGTACCGAAGTACAAACAGGGGCACATATGTGCATTTAGG
* * * * * *
61472684 GGTGCCAAAGTACAAGCAGAGGCACATGTGTACATTTAGG
1 GGTACCGAAGTACAAACAGGGGCACATATGTGCATTTAGG
* * * *
61472724 GGTATCGAAGTACAAACAGGGGTACATATGTGCATTCAAG
1 GGTACCGAAGTACAAACAGGGGCACATATGTGCATTTAGG
61472764 GGTACCGAAGTACAAACAGGGGCACATAT
1 GGTACCGAAGTACAAACAGGGGCACATAT
61472793 ATATAAATGA
Statistics
Matches: 123, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (40 bp):
GGTACCGAAGTACAAACAGGGGCACATATGTGCATTTAGG
Found at i:61484304 original size:22 final size:22
Alignment explanation
Indices: 61484279--61484322 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
61484269 TTTAAGCAGG
61484279 ATTAGCTACCGATTAACCAATT
1 ATTAGCTACCGATTAACCAATT
*
61484301 ATTAGCTATCGATTAACCAATT
1 ATTAGCTACCGATTAACCAATT
61484323 GTTACCTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (22 bp):
ATTAGCTACCGATTAACCAATT
Found at i:61485789 original size:25 final size:25
Alignment explanation
Indices: 61485761--61485811 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
61485751 TGTAGCTACG
61485761 TTTTGACTCACAGCTCATGTAAGCA
1 TTTTGACTCACAGCTCATGTAAGCA
* * *
61485786 TTTTGATTCACAGCTCGTGTGAGCA
1 TTTTGACTCACAGCTCATGTAAGCA
61485811 T
1 T
61485812 ACATATACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (25 bp):
TTTTGACTCACAGCTCATGTAAGCA
Found at i:61492938 original size:24 final size:24
Alignment explanation
Indices: 61492905--61492978 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
61492895 AAGTCTGTCT
*
61492905 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
61492929 GGAGAGGATTTAGGAGCTGATCAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
61492953 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
61492977 GG
1 GG
61492979 TGAACTGTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.42, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:61494441 original size:27 final size:27
Alignment explanation
Indices: 61494403--61494512 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 27
61494393 GAAGCGTCCC
*
61494403 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTCTGCCACAATTATCTGATCT
*
61494430 GGTGGCTCTGCCACATATT-TCTGTTCT
1 GGTGGCTCTGCCACA-ATTATCTGATCT
* ** *
61494457 GGTGGCTCTACCATGATTATCTATATCT
1 GGTGGCTCTGCCACAATTATCT-GATCT
* * *
61494485 GGTGACTCTGTCAC-ATTATCTGTTCT
1 GGTGGCTCTGCCACAATTATCTGATCT
61494511 GG
1 GG
61494513 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
26 8 0.12
27 43 0.64
28 16 0.24
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATTATCTGATCT
Found at i:61498300 original size:47 final size:47
Alignment explanation
Indices: 61498120--61498330 Score: 184
Period size: 46 Copynumber: 4.5 Consensus size: 47
61498110 TTATGAGAGT
* * * **
61498120 CAGTGTAAGACCATGTTTGGGACATGGCGTCAGTA-TTGAGATGAGGGC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCAG-ACTCGAGATGATAGC
* * * * *
61498168 TAGTGTAAGA-TATGTCTGGGACATGCATCGGCCTCGAGACG-TAAGC
1 CAGTGTAAGACCATGTCTGGGACATGCATCAGACTCGAGATGAT-AGC
* *
61498214 CAGTGTAAGA-CATGTCTTGGACATGCATC-GACTACGAGATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCAGACT-CGAGATGATAGC
*
61498260 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-ATGAGC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCAGACTCGAGATGAT-AGC
* *
61498307 CAGTGTAAGACCGTGTCTAGGACA
1 CAGTGTAAGACCATGTCTGGGACA
61498331 GGGTCTTACA
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 59 0.44
47 55 0.41
48 18 0.13
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCAGACTCGAGATGATAGC
Found at i:61498324 original size:140 final size:140
Alignment explanation
Indices: 61498075--61498330 Score: 324
Period size: 140 Copynumber: 1.8 Consensus size: 140
61498065 TGTGTGAGCT
* * * *
61498075 AGTGTAATACATGTCTGGAACATGCATCGGCCACATTATGAGAGTCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGAACATGCATCGACCACATGATGAGAGTCAGTGTAAGACCATGTCTGG
* * * * *
61498140 GACATGGCGTCAGTATTGAGATGAGGGCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGA
66 GACATGGCATCAGTATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
61498205 GACGTAAGCC
131 GACGTAAGCC
* *
61498215 AGTGTAAGACATGTCTTGG-ACATGCATCGACTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTC-TGGAACATGCATCGACCAC-ATGATGAGAGTCAGTGTAAGACCATGTCT
*
61498278 GGGACATGGCATC-G-ACTTGAGAT-ATGAGCCAGTGTAAGACCGTGTCTAGGACA
64 GGGACATGGCATCAGTA-TTGAGATGA-GAGCCAGTGTAAGA-CATGTCTAGGACA
61498331 GGGTCTTACA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 2 0.02
139 20 0.20
140 73 0.74
141 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGAACATGCATCGACCACATGATGAGAGTCAGTGTAAGACCATGTCTGG
GACATGGCATCAGTATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
GACGTAAGCC
Found at i:61500528 original size:28 final size:28
Alignment explanation
Indices: 61500450--61500541 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 28
61500440 TGGAAAGTAG
*
61500450 TTGGGCCTGATGGGCCATATGAATGTGG
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
61500478 TTGGGCCGGTTGGGCTATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
** * * *
61500506 TTGGGCCTGATAAGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
61500534 TTGGGCCT
1 TTGGGCCT
61500542 AAAAAGGCCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:61500888 original size:27 final size:27
Alignment explanation
Indices: 61500858--61501116 Score: 261
Period size: 27 Copynumber: 9.6 Consensus size: 27
61500848 TAATAAAGAG
* * *
61500858 AAATTACCAAAATACCCCCGATTTATA
1 AAATTATCGAAATACCCCCGATTTGTA
* *
61500885 AAATTATCGAAGTA-CCCCTAGTTTGTA
1 AAATTATCGAAATACCCCCGA-TTTGTA
** *
61500912 AAATTATCGAAGCACCCCCTATTTGTA
1 AAATTATCGAAATACCCCCGATTTGTA
* *** *
61500939 AAATTACCGAAATACCCTTAATTTATA
1 AAATTATCGAAATACCCCCGATTTGTA
* **
61500966 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCCCGATTTGTA
* *
61500993 AAATTATCGAAATACCCTCTATTTGTA
1 AAATTATCGAAATACCCCCGATTTGTA
*
61501020 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCCCGATTTGTA
* *
61501047 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCCCGATTTGTA
** *
61501074 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTATCGAAATACCCCCGAT-TTGTA
*
61501101 AAATTATCAAAATACC
1 AAATTATCGAAATACC
61501117 TTTGTAGTGT
Statistics
Matches: 199, Mismatches: 30, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
26 6 0.03
27 187 0.94
28 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCCCGATTTGTA
Found at i:61501091 original size:81 final size:81
Alignment explanation
Indices: 61500858--61501116 Score: 315
Period size: 81 Copynumber: 3.2 Consensus size: 81
61500848 TAATAAAGAG
* ** *
61500858 AAATTACCAAAATACCCCCGATTTATAAAATTATCGAAGTA-CCCCTAGTTTGTAAAATTATCGA
1 AAATTACCAAAATACCCTCGATTTATAAAATTATCGAAACACCCCCGA-TTTGTAAAATTATCGA
** *
61500922 AGCACCCCCTATTTGTA
65 AATACCCTCTATTTGTA
* ** **
61500939 AAATTACCGAAATACCCTTAATTTATAAAATTATCGAAACACCCTTGATTTGTAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTATAAAATTATCGAAACACCCCCGATTTGTAAAATTATCGAA
61501004 ATACCCTCTATTTGTA
66 ATACCCTCTATTTGTA
* * * *
61501020 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTATAAAATTATCGAAACACCCCCGATTTGTAAAATTATCGAA
* *
61501085 ATACCCT-TGTAGTGTA
66 ATACCCTCTAT-TTGTA
*
61501101 AAATTATCAAAATACC
1 AAATTACCAAAATACC
61501117 TTTGTAGTGT
Statistics
Matches: 154, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 2 0.01
81 149 0.97
82 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTATAAAATTATCGAAACACCCCCGATTTGTAAAATTATCGAA
ATACCCTCTATTTGTA
Found at i:61501121 original size:27 final size:27
Alignment explanation
Indices: 61500964--61501158 Score: 119
Period size: 27 Copynumber: 7.2 Consensus size: 27
61500954 CCTTAATTTA
* * *
61500964 TAAAATTATCGAAACACCCTTG-ATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
* * *
61500991 TAAAATTATCGAAATACCC-TCTATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
* * *
61501018 TAAAATTATCGAAATACCCTCG-ATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
* * * ** *
61501045 TAAAATTACCGAAACACCCCCG-ATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
*
61501072 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTATCAAAATACCCTTGTAGTG
*
61501099 TAAAATTATCAAAATACCTTTGTAGTG
1 TAAAATTATCAAAATACCCTTGTAGTG
* * * * * *
61501126 TAAAATGACCGACATACCCCTGTAGGG
1 TAAAATTATCAAAATACCCTTGTAGTG
61501153 TAAAAT
1 TAAAAT
61501159 GACTGTTTTG
Statistics
Matches: 144, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (27 bp):
TAAAATTATCAAAATACCCTTGTAGTG
Found at i:61506795 original size:19 final size:19
Alignment explanation
Indices: 61506771--61506809 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
61506761 AGGTTCAACC
61506771 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
61506790 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
61506809 T
1 T
61506810 ATGTAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (19 bp):
TTTGGTAGGCACCCAAATG
Found at i:61507820 original size:10 final size:10
Alignment explanation
Indices: 61507805--61507832 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
61507795 ATTTTGTTTG
61507805 TAGCTCATTT
1 TAGCTCATTT
61507815 TAGCTCATTT
1 TAGCTCATTT
61507825 TAGCTCAT
1 TAGCTCAT
61507833 AGGAATATAT
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:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (10 bp):
TAGCTCATTT
Found at i:61508965 original size:39 final size:40
Alignment explanation
Indices: 61508922--61509019 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
61508912 TATTGAATGC
*
61508922 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
61508961 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
61509007 ATACTTTCAATTT
1 ATACTTTCAATTT
61509020 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:61511324 original size:32 final size:32
Alignment explanation
Indices: 61511288--61511447 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
61511278 TATAACTATG
61511288 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * *
61511320 CTACTTTTTCAAATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
61511352 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
61511384 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
61511416 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
61511448 ATTTTTTATG
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 115 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:61511389 original size:64 final size:64
Alignment explanation
Indices: 61511288--61511447 Score: 284
Period size: 64 Copynumber: 2.5 Consensus size: 64
61511278 TATAACTATG
*
61511288 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCAAATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCAAATGCAAAACTAATGTATGAT
* * *
61511352 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCAAATGCAAAACTAATGTATGAT
61511416 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
61511448 ATTTTTTATG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 91 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCAAATGCAAAACTAATGTATGAT
Found at i:61513464 original size:21 final size:21
Alignment explanation
Indices: 61513438--61513490 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
61513428 CGCTGTTTCT
*
61513438 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
61513459 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
61513480 AATCTCACCGC
1 AATCTCACCGC
61513491 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:61517025 original size:20 final size:20
Alignment explanation
Indices: 61517000--61517042 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
61516990 GAGTCTTCAA
*
61517000 AAAT-AAATAGAAATAAAAGT
1 AAATAAAATA-AAATAAAAAT
61517020 AAATAAAATAAAATAAAAAT
1 AAATAAAATAAAATAAAAAT
61517040 AAA
1 AAA
61517043 ACGAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAT
Found at i:61524792 original size:22 final size:21
Alignment explanation
Indices: 61524767--61524807 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61524757 TTAGAATGCT
61524767 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTG-TGCCCCTCC
* *
61524789 CACATGTGCGTGTGCCCCT
1 CACACGGGCGTGTGCCCCT
61524808 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.10, C:0.41, G:0.27, T:0.22
Consensus pattern (21 bp):
CACACGGGCGTGTGCCCCTCC
Found at i:61528759 original size:97 final size:97
Alignment explanation
Indices: 61528653--61528849 Score: 376
Period size: 97 Copynumber: 2.0 Consensus size: 97
61528643 TGTATGCAAG
*
61528653 AAATGAGCAACCTTACCATGCATATAACATCTATATATTATAACATAATTGAATGTAAATTTACT
1 AAATGAGCAACCTTACCATGCATATAACATCTATATATTATAACATAATTGAATGTAAATTTACC
*
61528718 ATAGTCTCATGATTATAATTCATTCCATCACT
66 ATAGTCTCATGATTATAATTCATTCCACCACT
61528750 AAATGAGCAACCTTACCATGCATATAACATCTATATATTATAACATAATTGAATGTAAATTTACC
1 AAATGAGCAACCTTACCATGCATATAACATCTATATATTATAACATAATTGAATGTAAATTTACC
61528815 ATAGTCTCATGATTATAATTCATTCCACCACT
66 ATAGTCTCATGATTATAATTCATTCCACCACT
61528847 AAA
1 AAA
61528850 CTTACATCAT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (97 bp):
AAATGAGCAACCTTACCATGCATATAACATCTATATATTATAACATAATTGAATGTAAATTTACC
ATAGTCTCATGATTATAATTCATTCCACCACT
Found at i:61536562 original size:26 final size:26
Alignment explanation
Indices: 61536526--61536629 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
61536516 ACAAATTGAC
61536526 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
* * *
61536552 AATGGATTAGGTAAATATTCTATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
61536578 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
*
61536604 AATGGTTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
61536630 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
AATGGGTTAGGTAAATGTTCCATGAT
Found at i:61557619 original size:6 final size:6
Alignment explanation
Indices: 61557611--61557649 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
61557601 AAATAAGAGA
*
61557611 AGAAGA AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGA
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGA
61557650 GGGAAGGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:61558160 original size:27 final size:27
Alignment explanation
Indices: 61558130--61558183 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
61558120 TTGGTAAAAG
*
61558130 ATGAGACCATTGA-TATGGAATTTATGA
1 ATGAGACCATTAAGT-TGGAATTTATGA
61558157 ATGAGACCATTAAGTTGGAATTTATGA
1 ATGAGACCATTAAGTTGGAATTTATGA
61558184 GATAAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
ATGAGACCATTAAGTTGGAATTTATGA
Found at i:61558495 original size:20 final size:21
Alignment explanation
Indices: 61558464--61558502 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
61558454 ATGTTATGTT
*
61558464 ATGTTATATTTTTTTATTTGC
1 ATGTTATATTTTATTATTTGC
61558485 ATGTTAT-TTTTATTATTT
1 ATGTTATATTTTATTATTT
61558503 TAATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (21 bp):
ATGTTATATTTTATTATTTGC
Found at i:61560860 original size:14 final size:14
Alignment explanation
Indices: 61560841--61560869 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61560831 TGGAACAAAC
61560841 TTTGTAATATAAAT
1 TTTGTAATATAAAT
61560855 TTTGTAATATAAAT
1 TTTGTAATATAAAT
61560869 T
1 T
61560870 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:61560979 original size:62 final size:62
Alignment explanation
Indices: 61560812--61561102 Score: 494
Period size: 62 Copynumber: 4.7 Consensus size: 62
61560802 TAGCATTACA
* * * *
61560812 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
*
61560874 ACATTACAACA-TAAAAATTGGAACAAACTTTGTAATATAAATTTTCTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
*
61560935 ACATTACAACATTAAAAATTGGAACAAAATTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
* *
61560997 ACATTATAACATTAAAAATTGGAACAAACTTTGTAACATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
*
61561059 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
61561103 AGGTACATTG
Statistics
Matches: 216, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
61 58 0.27
62 158 0.73
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (62 bp):
ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
Found at i:61565263 original size:47 final size:47
Alignment explanation
Indices: 61565209--61565587 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
61565199 TTAGGATTTT
** * * *
61565209 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61565256 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61565303 ATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61565350 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61565397 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61565444 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61565491 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
61565538 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
61565585 ATG
1 ATG
61565588 CGAAATGTGT
Statistics
Matches: 312, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 309 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61565450 original size:22 final size:22
Alignment explanation
Indices: 61565423--61565497 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
61565413 CATGTATATG
61565423 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
61565445 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
61565470 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
61565492 TGTGAT
1 TGTGAT
61565498 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:61565544 original size:22 final size:22
Alignment explanation
Indices: 61565469--61565544 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
61565459 ACATGCATAT
*
61565469 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
61565491 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
61565515 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
61565538 ATGTGAT
1 ATGTGAT
61565545 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:61565617 original size:46 final size:46
Alignment explanation
Indices: 61565561--61565697 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
61565551 GGAAGTGTAT
61565561 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
61565607 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
61565653 ATAAGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
61565698 TGTATATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:61568521 original size:27 final size:27
Alignment explanation
Indices: 61568491--61568559 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
61568481 CTAGGTGTGC
61568491 CGCCTATCAAATAGGCACCACCAATGA
1 CGCCTATCAAATAGGCACCACCAATGA
* * *
61568518 CGCCTATCAAATAGGCATCACCAGTGC
1 CGCCTATCAAATAGGCACCACCAATGA
* *
61568545 CACCTATCAGATAGG
1 CGCCTATCAAATAGG
61568560 GGTTACTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.17
Consensus pattern (27 bp):
CGCCTATCAAATAGGCACCACCAATGA
Found at i:61569013 original size:15 final size:16
Alignment explanation
Indices: 61568984--61569016 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
61568974 GAATTTAATT
*
61568984 AATTTTATTATTTTTA
1 AATTTTATTAATTTTA
61569000 AATTTT-TTAATTTTA
1 AATTTTATTAATTTTA
61569015 AA
1 AA
61569017 ATTTCATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTATTAATTTTA
Found at i:61575476 original size:47 final size:46
Alignment explanation
Indices: 61575416--61575681 Score: 213
Period size: 47 Copynumber: 5.7 Consensus size: 46
61575406 GACGAGGGCT
*
61575416 AGTGTAAGACATGTCTGGGACATGCATCAGCCATGCTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATGATATGATAGCC
* * *
61575462 AGTTTAAGACCATGTCTGGGACATGGCATCGGCACA-GAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATGATATGA-TAGCC
* * *
61575510 AGTGTAAGACATGTCTGGGACATGCATTAGCC-TCGACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-GATA-TGATAGCC
* * * ** * * *
61575557 AGTATAAGACGTGTCTGGGACACGCATTGGCTAAGAGT-TG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATGA-TATGATAGCC
* *
61575601 AGTGTAAGACATGTCTGGGACATGCATCAGTACGCGT-ATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATGATATGATAGCC
*
61575649 AGTGTAAGACCATGTATGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
61575682 AATATATCCC
Statistics
Matches: 173, Mismatches: 29, Indels: 34
0.73 0.12 0.14
Matches are distributed among these distances:
44 27 0.16
45 3 0.02
46 23 0.13
47 62 0.36
48 35 0.20
49 16 0.09
50 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATGATATGATAGCC
Found at i:61575484 original size:94 final size:92
Alignment explanation
Indices: 61575376--61575678 Score: 314
Period size: 94 Copynumber: 3.2 Consensus size: 92
61575366 CTAGTGTAAA
* * *
61575376 ACCATGTCTAGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGC
1 ACCATGTCTGGGACATGGCATCGGCATCAAGA-GAGTGCTAGTGTAAGACATGTCTGGGACATGC
*
61575441 ATCAGCCATGCTATGATAGCCAGTTTAAG
65 ATCAGCC-TGCTATGATAGCCAGTATAAG
*
61575470 ACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAGTGCCAGTGTAAGACATGTCTGGGACATG
1 ACCATGTCTGGGACATGGCATCGGCATCA-AGA-GAGTGCTAGTGTAAGACATGTCTGGGACATG
* *
61575534 CATTAGCCTCGAC-AGAGATAGCCAGTATAAG
64 CATCAGCCT-G-CTA-TGATAGCCAGTATAAG
* * * *
61575565 A-CGTGTCTGGGACA-CGCATTGGC-T-AAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGC
1 ACCATGTCTGGGACATGGCATCGGCATCAAGAG-AGTGCTAGTGTAAGACATGTCTGGGACATGC
* * *
61575626 ATCAGTACGC-GTATATGAGAGCCAGTGTAAG
65 ATCAG--C-CTG-CTATGATAGCCAGTATAAG
*
61575657 ACCATGTATGGGACATGGCATC
1 ACCATGTCTGGGACATGGCATC
61575679 AGCAATATAT
Statistics
Matches: 174, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
90 1 0.01
91 36 0.21
92 16 0.09
93 22 0.13
94 83 0.48
95 16 0.09
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (92 bp):
ACCATGTCTGGGACATGGCATCGGCATCAAGAGAGTGCTAGTGTAAGACATGTCTGGGACATGCA
TCAGCCTGCTATGATAGCCAGTATAAG
Found at i:61580209 original size:13 final size:13
Alignment explanation
Indices: 61580187--61580219 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61580177 AAGGGTTTGT
61580187 TTAT-TAAACTAA
1 TTATCTAAACTAA
61580199 TTATCTAAACTAA
1 TTATCTAAACTAA
*
61580212 TTAACTAA
1 TTATCTAA
61580220 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:61584440 original size:47 final size:46
Alignment explanation
Indices: 61584372--61584730 Score: 178
Period size: 47 Copynumber: 7.7 Consensus size: 46
61584362 TGTGCGCTAG
*
61584372 TGTAAGACATGTCTGGGACATGCTTCAGCTACAT-TATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGC-ACATATATGAGAGCCAA
* * * * * * *
61584418 TGTAAGACCATGTCTGGGACATGGCATCGGCTTC-TAGAGGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGC-ACATATATGAGAGCCAA
* * * * * *
61584466 TGTAAGAAATGTCTGGGACATACGTTAGC-CATGCTATGATAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCACAT-ATATGAGAGCCAA
* * * * * *
61584512 TGTAAGACCATGTCTAGGACATAGCATCGGCACAGAAATGAGTGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCACATATATGAGAGCCAA
* * * * * * *
61584560 TGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAG-CAC-ATATATGAGAGCCAA
* * * * * * *
61584607 TGTAAGACGTGTCTGGGACACGCATCGGCTA-AGAGT-T--GTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGC-ACATA-TATGAGAGCCAA
* * *
61584651 TGTAAGACATGTCTGAGACATGCATCAGCACGCGTA-AGTGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCA--CATATA-TGAGAGCCAA
61584699 TGTAAGACCATGTCTGGGACATGGCATCAGCA
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCA
61584731 AGATATCCCA
Statistics
Matches: 236, Mismatches: 55, Indels: 40
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.13
45 3 0.01
46 34 0.14
47 87 0.37
48 56 0.24
49 15 0.06
50 9 0.04
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCACATATATGAGAGCCAA
Found at i:61584562 original size:94 final size:93
Alignment explanation
Indices: 61584370--61584580 Score: 259
Period size: 94 Copynumber: 2.2 Consensus size: 93
61584360 TTTGTGCGCT
* *
61584370 AGTGTAAGACATGTCTGGGACATGCTTCAGCTACATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATACTTCAGC-ACATTATGAGAGCCAATGTAAGACCATGTCTAG
* * *
61584435 GACATGGCATCGGCTTCTAGAGGAGGGCT
65 GACATAGCATCGGCTACTAGAGGAGGGCC
* *
61584464 AGTGTAAGAAATGTCTGGGACATACGTT-AGC-CATGCTATGATAGCCAATGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATAC-TTCAGCACAT--TATGAGAGCCAATGTAAGACCATGTCT
* *
61584527 AGGACATAGCATCGGC-AC-AGAAATGAGTGCC
63 AGGACATAGCATCGGCTACTAG--AGGAGGGCC
61584558 AGTGTAAGACATGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
61584581 GCATCGGCCT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
92 5 0.05
93 1 0.01
94 94 0.92
95 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATACTTCAGCACATTATGAGAGCCAATGTAAGACCATGTCTAGG
ACATAGCATCGGCTACTAGAGGAGGGCC
Found at i:61584726 original size:141 final size:140
Alignment explanation
Indices: 61584367--61584726 Score: 365
Period size: 141 Copynumber: 2.6 Consensus size: 140
61584357 TGATTTGTGC
* * * * *
61584367 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCTA-CATTATGAGAGCCAATGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGAGACATGCATCAGC-ACCGTAATGAGAGCCAGTGTAAGACCATGT
* * * * * * *
61584431 CTGGGACATGGCATCGGCTTCTAGAGGAGGGCTAGTGTAAGAAATGTCTGGGACATACGTTAGCC
65 CTGGGACATGGCATCGGCCTCGACAGGAGAGCTAGTGTAAGAAATGTCTGGGACACACATCAGCC
*
61584496 ATGCTATGATA
130 AAGCTATGATA
* * * * * *
61584507 GCCAATGTAAGACCATGTCT-AGGACATAGCATCGGCACAGAAATGAGTGCCAGTGTAAGA-CAT
1 GCTAGTGTAAGA-CATGTCTGA-GACAT-GCATCAGCACCGTAATGAGAGCCAGTGTAAGACCAT
* ** * *
61584570 GTCTGGGACAT-GCATCGGCCTCGACAGAGATAGCTAGTGTAAGACGTGTCTGGGACACGCATCG
63 GTCTGGGACATGGCATCGGCCTCGACAG-GAGAGCTAGTGTAAGAAATGTCTGGGACACACATCA
* *
61584634 GCTAAGAGT-TG-T-
127 GCCAAG-CTATGATA
61584646 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCACGCGTAAGTGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCAC-CGTAA-TGAGAGCCAGTGTAAGACCATG
61584711 TCTGGGACATGGCATC
64 TCTGGGACATGGCATC
61584727 AGCAAGATAT
Statistics
Matches: 177, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
137 9 0.05
138 15 0.08
139 27 0.15
140 38 0.21
141 65 0.37
142 23 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (140 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCAGCACCGTAATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCCTCGACAGGAGAGCTAGTGTAAGAAATGTCTGGGACACACATCAGCCA
AGCTATGATA
Found at i:61588114 original size:78 final size:78
Alignment explanation
Indices: 61587878--61588114 Score: 357
Period size: 78 Copynumber: 3.0 Consensus size: 78
61587868 CCTTGGGAAG
61587878 TAAACAAATCCATAAAATAATCATTTGTAACATCAAATAGCCCCTCATTATCTCAAACCAAACTC
1 TAAACAAATCCATAAAATAATCATTTGTAACATCAAATAGCCCCTCATTATCTCAAACCAAACTC
* **
61587943 CCATTATTTGTAA
66 CCATCATTTACAA
* ** * * *
61587956 TAAATAAATTAATAAATTAATCATTTGTAACATCAAATAGCCCCTCACTATTTCAAACCAAACTC
1 TAAACAAATCCATAAAATAATCATTTGTAACATCAAATAGCCCCTCATTATCTCAAACCAAACTC
**
61588021 CCATCATTTTGAA
66 CCATCATTTACAA
* *
61588034 TAAACAAATCCATAAAATAATCATTTGCAACATCAAATAGCCCCTCATTATCTCGAACCAAACTC
1 TAAACAAATCCATAAAATAATCATTTGTAACATCAAATAGCCCCTCATTATCTCAAACCAAACTC
61588099 CCATCATTTACAA
66 CCATCATTTACAA
61588112 TAA
1 TAA
61588115 GACCGCTCAC
Statistics
Matches: 140, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 140 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.29
Consensus pattern (78 bp):
TAAACAAATCCATAAAATAATCATTTGTAACATCAAATAGCCCCTCATTATCTCAAACCAAACTC
CCATCATTTACAA
Found at i:61589676 original size:42 final size:42
Alignment explanation
Indices: 61589587--61589684 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
61589577 ACCGAGACTA
* *
61589587 TGTGTAAGACCATATTTGGGATATGACATCATTATAAGATTT
1 TGTGTAAGACCATATCTGGGATATGACACCATTATAAGATTT
* *
61589629 CGTGTAAGACCATATCTGGGATATGGCACCGA-TATGAA-ATTT
1 TGTGTAAGACCATATCTGGGATATGACACC-ATTAT-AAGATTT
*
61589671 TGTGTAAAACCATA
1 TGTGTAAGACCATA
61589685 GCCGGGCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (42 bp):
TGTGTAAGACCATATCTGGGATATGACACCATTATAAGATTT
Found at i:61597162 original size:42 final size:42
Alignment explanation
Indices: 61597114--61597209 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
61597104 CGAGACTATG
*
61597114 TGTAAGACCATATCTGGGATATGACA-TCATTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGACACTCA-TATGAAATTTCA
* * **
61597156 TGTAAGACCATATCTGGGATATGGCACTGATATGAAATTTTG
1 TGTAAGACCATATCTGGGATATGACACTCATATGAAATTTCA
61597198 TGTAAGACCATA
1 TGTAAGACCATA
61597210 GTCGAGCTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACACTCATATGAAATTTCA
Found at i:61599027 original size:25 final size:27
Alignment explanation
Indices: 61598986--61599040 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
61598976 AGTCAAACAT
61598986 GTATTTAGGTCAATTTAAC-CCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
* *
61599012 GTATTTCGGT-AATTTATCTCCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
61599038 GTA
1 GTA
61599041 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGG
Found at i:61600554 original size:32 final size:32
Alignment explanation
Indices: 61600517--61600581 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
61600507 AATGCTTACC
61600517 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
61600549 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
61600581 A
1 A
61600582 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:61604301 original size:12 final size:12
Alignment explanation
Indices: 61604278--61604327 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
61604268 AGCTTGAGTA
*
61604278 CTACCTCGGCCT
1 CTACCACGGCCT
*
61604290 CGACCACGGCCT
1 CTACCACGGCCT
61604302 CTACCACGGCCT
1 CTACCACGGCCT
61604314 CTACCACGGCCT
1 CTACCACGGCCT
61604326 CT
1 CT
61604328 TCCCCGAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.14, C:0.50, G:0.18, T:0.18
Consensus pattern (12 bp):
CTACCACGGCCT
Found at i:61605953 original size:25 final size:27
Alignment explanation
Indices: 61605912--61605966 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
61605902 AGTCAAACAT
61605912 GTATTTAGGTCAATTTAAC-CCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
* *
61605938 GTATTTCGGT-AATTTATCTCCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
61605964 GTA
1 GTA
61605967 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGG
Found at i:61607482 original size:30 final size:31
Alignment explanation
Indices: 61607431--61607492 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
61607421 AATGCTTACC
61607431 ATGCCCATCATCCATTAACTATAAAATGCTA
1 ATGCCCATCATCCATTAACTATAAAATGCTA
61607462 ATGCCCATCATCCA-TAACTATAAAATGCTA
1 ATGCCCATCATCCATTAACTATAAAATGCTA
61607492 A
1 A
61607493 AAGCAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.27
Consensus pattern (31 bp):
ATGCCCATCATCCATTAACTATAAAATGCTA
Found at i:61608041 original size:13 final size:13
Alignment explanation
Indices: 61608018--61608063 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
61608008 GACAGGGCTA
61608018 GGCGT-TGCCCTG
1 GGCGTGTGCCCTG
*
61608030 GGCATGTGCCCTG
1 GGCGTGTGCCCTG
61608043 GGCGTGTGCCCTG
1 GGCGTGTGCCCTG
61608056 GGCGTGTG
1 GGCGTGTG
61608064 AAGCCTACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 4 0.13
13 27 0.87
ACGTcount: A:0.02, C:0.28, G:0.46, T:0.24
Consensus pattern (13 bp):
GGCGTGTGCCCTG
Found at i:61626551 original size:30 final size:30
Alignment explanation
Indices: 61626517--61626577 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61626507 CCCTTAACTC
61626517 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61626547 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61626577 A
1 A
61626578 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61629545 original size:12 final size:11
Alignment explanation
Indices: 61629527--61629626 Score: 64
Period size: 10 Copynumber: 9.2 Consensus size: 11
61629517 AATATCACCA
61629527 ATCAATTTCAT
1 ATCAATTTCAT
61629538 ACTCAATTTCAT
1 A-TCAATTTCAT
*
61629550 ATCAA-ATCAT
1 ATCAATTTCAT
* * *
61629560 ACCAAATTGAT
1 ATCAATTTCAT
**
61629571 AT-AACTACCA-
1 ATCAA-TTTCAT
61629581 ATCAATTTCAT
1 ATCAATTTCAT
61629592 ACTCAATTTCAT
1 A-TCAATTTCAT
*
61629604 ATCAA-ATCAT
1 ATCAATTTCAT
* *
61629614 ACCAAATTCAT
1 ATCAATTTCAT
61629625 AT
1 AT
61629627 AACTAACTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
10 23 0.34
11 22 0.33
12 22 0.33
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (11 bp):
ATCAATTTCAT
Found at i:61629587 original size:54 final size:54
Alignment explanation
Indices: 61629523--61629631 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
61629513 TCACAATATC
*
61629523 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTGATATAACT
1 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
61629577 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
1 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
61629631 A
1 A
61629632 ACTTACCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (54 bp):
ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
Found at i:61640883 original size:42 final size:42
Alignment explanation
Indices: 61640805--61640896 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
61640795 TGGCCCTTAG
* * ** ** *
61640805 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACAGGAAATACCAATAAATGTATACAA
61640847 GCCCATTTCAATATCACAGGAAATACCAATAAATGTATACAA
1 GCCCATTTCAATATCACAGGAAATACCAATAAATGTATACAA
*
61640889 TCCCATTT
1 GCCCATTT
61640897 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACAGGAAATACCAATAAATGTATACAA
Found at i:61641111 original size:26 final size:26
Alignment explanation
Indices: 61641041--61641163 Score: 160
Period size: 26 Copynumber: 4.8 Consensus size: 26
61641031 CCTCTTTAAT
**
61641041 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
61641066 AACTGGGGTA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
61641091 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
61641117 AACTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
61641143 AAGTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
61641164 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 31 0.36
26 55 0.64
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:61641154 original size:52 final size:51
Alignment explanation
Indices: 61641041--61641163 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 51
61641031 CCTCTTTAAT
* *
61641041 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGTAAAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
* *
61641091 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTTAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
*
61641143 AAGTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
61641164 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 10 0.15
51 24 0.36
52 33 0.49
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (51 bp):
AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:61642027 original size:27 final size:27
Alignment explanation
Indices: 61641965--61642042 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
61641955 GGGCATATTC
61641965 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
61641992 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
61642019 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
61642043 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:61642113 original size:27 final size:27
Alignment explanation
Indices: 61642060--61642312 Score: 138
Period size: 27 Copynumber: 9.3 Consensus size: 27
61642050 TTTCATCCTA
* * * **
61642060 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
61642087 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* *** *
61642114 CAATGGTATTTCCATAATTTT-TAGAAAGT
1 CAAGGGTATTTTGGTAATTTTGT--AAA-C
*
61642143 CAAGGGTATTTCT-GTAACTTTGTAAA-
1 CAAGGGTATTT-TGGTAATTTTGTAAAC
* * *
61642169 TATGGGGTATTTTGGTAATTTTAG-AAAT
1 CA-AGGGTATTTTGGTAATTTT-GTAAAC
** * ***
61642197 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
**
61642224 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTGTAAAC
* * *
61642251 TAGGGGTCTTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
61642278 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
61642305 CGAGGGTA
1 CAAGGGTA
61642313 AAACAATAAT
Statistics
Matches: 174, Mismatches: 40, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
26 5 0.03
27 143 0.82
28 9 0.05
29 16 0.09
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:61642232 original size:54 final size:54
Alignment explanation
Indices: 61642174--61642312 Score: 156
Period size: 54 Copynumber: 2.6 Consensus size: 54
61642164 GTAAATATGG
*
61642174 GGTATTTTGGTAATTTTAGAAATTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTAGAAATTGAGGGTATTTCGGTAATTTCACAAACCAAT
* * * * ***
61642228 GGTATTTTGGTAATTTTACAAACT-AGGGGTCTTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTAGAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAT
* *
61642282 GGTATTTTAGTAATTTT-GTAAATCGAGGGTA
1 GGTATTTTGGTAATTTTAG-AAATTGAGGGTA
61642313 AAACAATAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 67 0.97
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTAGAAATTGAGGGTATTTCGGTAATTTCACAAACCAAT
Found at i:61642322 original size:27 final size:27
Alignment explanation
Indices: 61642290--61642420 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
61642280 ATGGTATTTT
*
61642290 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
61642317 AATAATTCTGTAGATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
61642344 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
61642371 ATTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
61642398 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
61642421 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:61645527 original size:16 final size:16
Alignment explanation
Indices: 61645506--61645536 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61645496 ATGTAATGCT
61645506 CCAAAAATCTCGAAAC
1 CCAAAAATCTCGAAAC
61645522 CCAAAAATCTCGAAA
1 CCAAAAATCTCGAAA
61645537 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.29, G:0.06, T:0.13
Consensus pattern (16 bp):
CCAAAAATCTCGAAAC
Found at i:61647065 original size:29 final size:28
Alignment explanation
Indices: 61647023--61647134 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 28
61647013 ATAATATGAT
*
61647023 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTG-A
* *
61647052 TTGGGCCTAGTGGGCCATAAGAATATGTA
1 TTGGGCCTAGTGGGCCATATGAATGTG-A
* * *
61647081 CTGGGCC-AGATGGGCTATATGAATTTGA
1 TTGGGCCTAG-TGGGCCATATGAATGTGA
* *
61647109 TTGGGCATAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
61647135 ATGTAGGGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 21 0.31
29 47 0.69
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
TTGGGCCTAGTGGGCCATATGAATGTGA
Found at i:61651496 original size:79 final size:81
Alignment explanation
Indices: 61651360--61651544 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61651350 TTGAATGATG
* *
61651360 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61651424 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61651439 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61651501 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61651519 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61651545 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61651558 original size:40 final size:40
Alignment explanation
Indices: 61651361--61651544 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61651351 TGAATGATGT
* * * *
61651361 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61651401 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61651441 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61651479 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61651520 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61651545 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61651566 original size:79 final size:79
Alignment explanation
Indices: 61651413--61651577 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61651403 GGACTAAGAT
* * **
61651413 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61651478 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61651492 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61651555 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61651571 CCGAAGG
1 CCGAAGG
61651578 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61659403 original size:39 final size:40
Alignment explanation
Indices: 61659299--61659483 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
61659289 TTGAATGATG
* * *
61659299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
61659338 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61659379 TCCGGGCTAAG-CCCTAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61659418 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61659457 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
61659484 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:61659437 original size:79 final size:81
Alignment explanation
Indices: 61659299--61659483 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
61659289 TTGAATGATG
* *
61659299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61659363 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
61659378 TTCCGGGCTAAG-CCCTAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61659440 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61659458 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61659484 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61659505 original size:79 final size:79
Alignment explanation
Indices: 61659352--61659516 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
61659342 GGACTAAGAT
* * * **
61659352 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCTAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61659417 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61659431 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61659494 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61659510 CCGAAGG
1 CCGAAGG
61659517 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61662637 original size:29 final size:29
Alignment explanation
Indices: 61662595--61662706 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
61662585 ATAATATGAT
*
61662595 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
61662624 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
61662653 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
*
61662681 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
61662707 ATATAGGGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 23 0.32
29 48 0.68
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:61662677 original size:58 final size:57
Alignment explanation
Indices: 61662587--61662699 Score: 174
Period size: 58 Copynumber: 2.0 Consensus size: 57
61662577 GCATGAGTAT
** *
61662587 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCTAATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
61662645 AATATGAACTGGGCC-AGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCTA-ATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
61662700 TGCATGTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 21 0.41
58 30 0.59
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:61665604 original size:27 final size:27
Alignment explanation
Indices: 61665574--61665884 Score: 191
Period size: 27 Copynumber: 11.5 Consensus size: 27
61665564 AATGTCCTGA
* *
61665574 ATTTGTAAAATTACCAAAGTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * ** *
61665601 ATTTACAGAATTACCATTTTACCCTTG
1 ATTTATAAAATTACCAAATTACCCTCG
* ***
61665628 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ** *
61665655 ATTTATAGAATTACCATTTTACCCTCA
1 ATTTATAAAATTACCAAATTACCCTCG
* * ** *
61665682 ATTTACAGAATTACCATTTTACTCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ** *
61665709 ATTTATAGAATTACCATTTTACCCTCC
1 ATTTATAAAATTACCAAATTACCCTCG
* * *
61665736 ATTTATAAAATTACTAAAATACCCT-T
1 ATTTATAAAATTACCAAATTACCCTCG
* * *
61665762 AGTTTACAAAATTACCAAAATACCC-CT
1 A-TTTATAAAATTACCAAATTACCCTCG
*
61665789 AGTTTATAAAATTACCAAAATACCACT-G
1 A-TTTATAAAATTACCAAATTACC-CTCG
* * * * *
61665817 GTTTGTGAAATTACCGAAA-GACCCTCA
1 ATTTATAAAATTACC-AAATTACCCTCG
* *
61665844 ATTTGTAAAATTACCAAAATACCC-CTG
1 ATTTATAAAATTACCAAATTACCCTC-G
*
61665871 ATTTACAAAATTAC
1 ATTTATAAAATTAC
61665885 AGAAATACCT
Statistics
Matches: 235, Mismatches: 41, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
26 7 0.03
27 224 0.95
28 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
ATTTATAAAATTACCAAATTACCCTCG
Found at i:61665638 original size:54 final size:54
Alignment explanation
Indices: 61665580--61665778 Score: 220
Period size: 54 Copynumber: 3.7 Consensus size: 54
61665570 CTGAATTTGT
* **
61665580 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
*** *
61665634 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
* ** * * * *
61665688 AGAATTACCATTTTACTCTCGATTTATAGAATTACCATTTTACCCTCCATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
* * * *
61665742 AAAATTACTAAAATACCCT-TAGTTTACAAAATTACCA
1 AAAATTACCAAATTACCCTCGA-TTTACAGAATTACCA
61665779 AAATACCCCT
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTAC
Found at i:61665759 original size:81 final size:81
Alignment explanation
Indices: 61665574--61665778 Score: 257
Period size: 81 Copynumber: 2.5 Consensus size: 81
61665564 AATGTCCTGA
* * * *
61665574 ATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAAT
1 ATTTATAAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAAT
* *
61665639 TACCGTTTTACCCTCG
66 TACCATTTTACCCTCC
* *** * * *
61665655 ATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACTCTCGATTTATAGAAT
1 ATTTATAAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAAT
61665720 TACCATTTTACCCTCC
66 TACCATTTTACCCTCC
* * * *
61665736 ATTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCA
1 ATTTATAAAATTACCAAAATACCCTCAATTTACAGAATTACCA
61665779 AAATACCCCT
Statistics
Matches: 104, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (81 bp):
ATTTATAAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAAT
TACCATTTTACCCTCC
Found at i:61665786 original size:54 final size:55
Alignment explanation
Indices: 61665728--61665951 Score: 181
Period size: 54 Copynumber: 4.1 Consensus size: 55
61665718 ATTACCATTT
* * *
61665728 TACCCTCCA-TTTATAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCAACTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * *** *
61665782 TACCC-CTAGTTTATAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
1 TACCCTCAACTTTATAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAA
* * * *
61665836 GACCCTCAA-TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTCAACTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAA
* ** * * * **
61665890 TACCTTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCAACTTTAT-AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
61665946 TACCCT
1 TACCCT
61665952 TGGTTTGTAG
Statistics
Matches: 134, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
53 4 0.03
54 86 0.64
55 8 0.06
56 36 0.27
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.31
Consensus pattern (55 bp):
TACCCTCAACTTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:61665828 original size:81 final size:79
Alignment explanation
Indices: 61665743--61666004 Score: 195
Period size: 81 Copynumber: 3.2 Consensus size: 79
61665733 TCCATTTATA
61665743 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAA
1 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCT-GTTTATAAAATTACCAAA
61665808 ATACCACTGGTTTGTG
65 ATACC-CTGGTTTGTG
** * * * ** *
61665824 AAATTACCGAAAGACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGA
1 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTG-TTTATAAAATTACCA-A
* * * *
61665888 AATACCTTTGACTTTCTAA
64 AATACC-CTG-GTTTGT-G
* * ** * * * *
61665907 AAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAA
1 AAATTACTA-AAATACCCTTAGTTTACAAAATTACCAAAATACCCCT-GTTTATAAAATTACCAA
* * **
61665971 AACACCCTTGTAGGATG
64 AATACCCTGGTTTG-TG
*
61665988 AAATGACTAAAATACCC
1 AAATTACTAAAATACCC
61666005 CTAATAGATA
Statistics
Matches: 133, Mismatches: 39, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
80 3 0.02
81 72 0.54
82 8 0.06
83 47 0.35
84 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (79 bp):
AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGTTTATAAAATTACCAAAA
TACCCTGGTTTGTG
Found at i:61665945 original size:27 final size:27
Alignment explanation
Indices: 61665737--61665980 Score: 145
Period size: 27 Copynumber: 9.0 Consensus size: 27
61665727 TTACCCTCCA
* * *
61665737 TTTATAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
61665764 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
*
61665791 TTTATAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
*** * * ***
61665818 TTTGTGAAATTACCGAAAGACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
61665845 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGG
* *
61665872 TTTACAAAATTA-CAGAAATACCTTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* *
61665900 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
**
61665928 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * * *
61665955 TTTGTAGATTTACCAAAACACCCTTG
1 TTTACAAAATTACCAAAATACCCTTG
61665981 TAGGATGAAA
Statistics
Matches: 174, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 143 0.82
28 8 0.05
29 20 0.11
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:61666043 original size:27 final size:27
Alignment explanation
Indices: 61665998--61666071 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
61665988 AAATGACTAA
*
61665998 AATACCCCTAATA-GATAAAAAGACCGT
1 AATACCCCT-ATAGGGTAAAAAGACCGT
* **
61666025 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTATAGGGTAAAAAGACCGT
*
61666052 AATACCCCTATATGGTAAAA
1 AATACCCCTATAGGGTAAAA
61666072 TGATGAATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
26 3 0.08
27 33 0.89
28 1 0.03
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAAAGACCGT
Found at i:61667921 original size:29 final size:28
Alignment explanation
Indices: 61667885--61667962 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
61667875 TCATGAGATT
61667885 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61667915 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61667942 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
61667963 GATTATTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61668204 original size:174 final size:174
Alignment explanation
Indices: 61667915--61668407 Score: 869
Period size: 174 Copynumber: 2.9 Consensus size: 174
61667905 AAATTGTACA
*
61667915 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTG---ATT----A-T-TG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61667971 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61668036 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
61668080 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGAGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61668145 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61668210 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
61668254 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
61668319 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAACGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61668384 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
61668408 ACCTTGAGTT
Statistics
Matches: 311, Mismatches: 8, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
165 46 0.15
168 3 0.01
172 1 0.00
173 1 0.00
174 260 0.84
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:61676226 original size:29 final size:28
Alignment explanation
Indices: 61676190--61676267 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
61676180 TCATGAGATT
61676190 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61676220 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61676247 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
61676268 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61676645 original size:174 final size:172
Alignment explanation
Indices: 61676220--61676710 Score: 865
Period size: 174 Copynumber: 2.9 Consensus size: 172
61676210 AAATTGTACA
*
61676220 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61676285 TGTG-GAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGAC-TTA-CGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61676347 -TTTGGACAGCGG-AAAGGTAAGTGTGCGAACTTGAATGCAT
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAATGCAT
*
61676387 GCACT-AGTGTGTGAGTTTAAAGTGCATGGCACTAAG-GTGCG-GGTTGATTATTAAG-ACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
61676448 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
61676513 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCAT
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTG-AATGCAT
61676556 GGCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAT
1 -GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAT
* *
61676621 GTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
65 GTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCG
61676686 ATTTTGGACAGCGGAAAAGGTAAGT
130 ATTTTGGACAGCGGAAAAGGTAAGT
61676711 ACCTTGAGTT
Statistics
Matches: 308, Mismatches: 5, Indels: 15
0.94 0.02 0.05
Matches are distributed among these distances:
163 10 0.03
164 61 0.20
165 8 0.03
166 37 0.12
167 17 0.06
168 21 0.07
169 7 0.02
170 5 0.02
171 30 0.10
172 5 0.02
173 14 0.05
174 93 0.30
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (172 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAATGCAT
Found at i:61680872 original size:19 final size:20
Alignment explanation
Indices: 61680829--61680874 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
61680819 GGGTTAAGAT
61680829 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
*
61680849 TGAGCT-AACTTGAGCTTG-A
1 TGAGCTGAA-TTGAGCTCGAA
61680868 TGAGCTG
1 TGAGCTG
61680875 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:61683283 original size:31 final size:29
Alignment explanation
Indices: 61683242--61683312 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 29
61683232 CGCAAGACTT
*
61683242 TCACTTTTTTTTTAACTTGATTTTTTTTGC
1 TCACTTTTTTTTTAACTCGATTTTTTTT-C
** *
61683272 TCACCTTTTTTTTTTGCTCGATTTTTTTTT
1 TCA-CTTTTTTTTTAACTCGATTTTTTTTC
61683302 TCACTTTTTTT
1 TCACTTTTTTT
61683313 GAATTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 8 0.22
30 6 0.17
31 22 0.61
ACGTcount: A:0.10, C:0.15, G:0.06, T:0.69
Consensus pattern (29 bp):
TCACTTTTTTTTTAACTCGATTTTTTTTC
Found at i:61683296 original size:16 final size:16
Alignment explanation
Indices: 61683262--61683302 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
61683252 TTTAACTTGA
61683262 TTTTTTTTGCTCACCTT
1 TTTTTTTTGCTCA-CTT
61683279 TTTTTTTTGCTCGA-TT
1 TTTTTTTTGCTC-ACTT
61683295 TTTTTTTT
1 TTTTTTTT
61683303 CACTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.43
17 12 0.52
18 1 0.04
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTTTTTGCTCACTT
Found at i:61683321 original size:12 final size:12
Alignment explanation
Indices: 61683306--61683361 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
61683296 TTTTTTTCAC
61683306 TTTTTTTGAATT
1 TTTTTTTGAATT
* *
61683318 TTTTTTCAATCAAAT
1 TTTTTT---TGAATT
61683333 -TTTTTTGAATT
1 TTTTTTTGAATT
61683344 TTTTTTTGAATT
1 TTTTTTTGAATT
61683356 TTTTTT
1 TTTTTT
61683362 GTTACTCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.11
12 23 0.64
14 5 0.14
15 4 0.11
ACGTcount: A:0.20, C:0.04, G:0.05, T:0.71
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:61684852 original size:10 final size:10
Alignment explanation
Indices: 61684837--61684874 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
61684827 TTGGGTTAAG
61684837 ATTGAGCTGA
1 ATTGAGCTGA
61684847 ATTGAGCTCGA
1 ATTGAGCT-GA
61684858 A-TGAGCTGA
1 ATTGAGCTGA
*
61684867 CTTGAGCT
1 ATTGAGCT
61684875 TGAGTGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.80
11 3 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:61684862 original size:20 final size:20
Alignment explanation
Indices: 61684839--61684885 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
61684829 GGGTTAAGAT
61684839 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
61684859 TGAGCTGACTTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
61684879 TGAGCTG
1 TGAGCTG
61684886 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:61702982 original size:25 final size:27
Alignment explanation
Indices: 61702941--61702995 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
61702931 AGTCAAACAT
61702941 GTATTTAGGTCAATTTAAC-CCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
* *
61702967 GTATTTCGGT-AATTTATCTCCTAGGG
1 GTATTTAGGTCAATTTAACTCCTAGGG
61702993 GTA
1 GTA
61702996 AAACTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (27 bp):
GTATTTAGGTCAATTTAACTCCTAGGG
Found at i:61704494 original size:32 final size:32
Alignment explanation
Indices: 61704457--61704521 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
61704447 AATGCTTACC
61704457 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
61704489 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
61704521 A
1 A
61704522 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:61705148 original size:13 final size:13
Alignment explanation
Indices: 61705126--61705174 Score: 89
Period size: 13 Copynumber: 3.8 Consensus size: 13
61705116 GGCTTAGGCA
61705126 TGGGCGTGTGCCC
1 TGGGCGTGTGCCC
*
61705139 TGGGCATGTGCCC
1 TGGGCGTGTGCCC
61705152 TGGGCGTGTGCCC
1 TGGGCGTGTGCCC
61705165 TGGGCGTGTG
1 TGGGCGTGTG
61705175 AAGCCTACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.02, C:0.27, G:0.47, T:0.24
Consensus pattern (13 bp):
TGGGCGTGTGCCC
Found at i:61708087 original size:44 final size:43
Alignment explanation
Indices: 61707985--61708087 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 43
61707975 AGAATGTGAG
* * * *
61707985 CTTTAGCGGCGCTTTTTCTGAAAATGTCACTAAATGTCGTGTT
1 CTTTAGCGGCGCTTTTTCTAAAAATGCCACTAAAAGTCGTATT
* * * *
61708028 CTTTAGCAGCAGCTTTTTGTAAAAAGTGCCGCTAAAAGTCTTATT
1 CTTTAGCGGC-GCTTTTTCTAAAAA-TGCCACTAAAAGTCGTATT
61708073 CTTTAGCGGCGCTTT
1 CTTTAGCGGCGCTTT
61708088 GGAAAGAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 9 0.18
44 17 0.35
45 23 0.47
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTCTAAAAATGCCACTAAAAGTCGTATT
Found at i:61708619 original size:9 final size:9
Alignment explanation
Indices: 61708605--61708649 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
61708595 TGATATTTAT
*
61708605 TTATGTTAG
1 TTATGTAAG
*
61708614 TTATGTAAA
1 TTATGTAAG
61708623 TTATGTAAG
1 TTATGTAAG
61708632 TTATGTAAG
1 TTATGTAAG
*
61708641 TTATATAAG
1 TTATGTAAG
61708650 AGCTCCTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61710743 original size:84 final size:84
Alignment explanation
Indices: 61710602--61710767 Score: 332
Period size: 84 Copynumber: 2.0 Consensus size: 84
61710592 ATTTGCAAAC
61710602 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
1 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
61710667 TTGGAAATAGAGAATCATT
66 TTGGAAATAGAGAATCATT
61710686 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
1 AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
61710751 TTGGAAATAGAGAATCA
66 TTGGAAATAGAGAATCA
61710768 AATTCAAATG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (84 bp):
AAATTATGGCTTAAAGCATGGGAAAGTATCGGTGATGGAGAAATTAGCATTATCATTGTACATTC
TTGGAAATAGAGAATCATT
Found at i:61712285 original size:21 final size:21
Alignment explanation
Indices: 61712259--61712308 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
61712249 CATTGTTTCT
*
61712259 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
* *
61712280 AATCTCAATGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
61712301 AATCTCAC
1 AATCTCAC
61712309 CGCCACCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:61712426 original size:43 final size:45
Alignment explanation
Indices: 61712370--61712481 Score: 147
Period size: 43 Copynumber: 2.5 Consensus size: 45
61712360 CTTAGCCTAT
* * *
61712370 GTTATGTAAGTTATGGCATTTATGATATGATATATATTTATGT-A
1 GTTATGTAAGTTATGGAAGTTATGATATGATATATATTTATATAA
* *
61712414 -TTATCTAAGTTATGTAAGTTATGATATGATATATATTTATATAA
1 GTTATGTAAGTTATGGAAGTTATGATATGATATATATTTATATAA
* *
61712458 GTTATGTAAGTTATGTACGTTATG
1 GTTATGTAAGTTATGGAAGTTATG
61712482 TGAGGTATGT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 37 0.63
44 1 0.02
45 21 0.36
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (45 bp):
GTTATGTAAGTTATGGAAGTTATGATATGATATATATTTATATAA
Found at i:61712431 original size:9 final size:9
Alignment explanation
Indices: 61712414--61712499 Score: 75
Period size: 9 Copynumber: 9.6 Consensus size: 9
61712404 TATTTATGTA
*
61712414 TTATCTAAG
1 TTATGTAAG
61712423 TTATGTAAG
1 TTATGTAAG
*
61712432 TTATGATATG
1 TTATG-TAAG
* * *
61712442 ATATAT-AT
1 TTATGTAAG
*
61712450 TTATATAAG
1 TTATGTAAG
61712459 TTATGTAAG
1 TTATGTAAG
*
61712468 TTATGTACG
1 TTATGTAAG
*
61712477 TTATGTGAG
1 TTATGTAAG
*
61712486 GTATGTAAG
1 TTATGTAAG
61712495 TTATG
1 TTATG
61712500 ATATTATATA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
8 5 0.08
9 49 0.82
10 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:61712472 original size:61 final size:60
Alignment explanation
Indices: 61712407--61712535 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 60
61712397 TGATATATAT
* * * *
61712407 TTATGTA-TTATCTAAGTTATGTAAGTTATGATATGATATATATTTATATAAGTTATGTAAG
1 TTATGTACTTATCTAAGGTATGTAAGTTATGATAT--TATATATATATATAAGGTATATAAG
* * *
61712468 TTATGTACGTTATGTGAGGTATGTAAGTTATGATATTATATATATATTTAAGGTATATAAG
1 TTATGTAC-TTATCTAAGGTATGTAAGTTATGATATTATATATATATATAAGGTATATAAG
61712529 TTATGTA
1 TTATGTA
61712536 ATTTTAAAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 35 0.59
63 24 0.41
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.47
Consensus pattern (60 bp):
TTATGTACTTATCTAAGGTATGTAAGTTATGATATTATATATATATATAAGGTATATAAG
Found at i:61712495 original size:36 final size:36
Alignment explanation
Indices: 61712419--61712536 Score: 102
Period size: 36 Copynumber: 3.3 Consensus size: 36
61712409 ATGTATTATC
* **
61712419 TAAGTTATGTAAGTTATGATATGATATATATTTATA
1 TAAGTTATGTAAGTTATGATACGATATATAGGTATA
* * *
61712455 TAAGTTATGTAAGTTATG-TACGTTATGTGAGGTATG
1 TAAGTTATGTAAGTTATGATACGATATAT-AGGTATA
* *
61712491 TAAGTTATG-ATA-TTAT-ATA-TATATTTAAGGTATA
1 TAAGTTATGTA-AGTTATGATACGATATAT-AGGTATA
61712525 TAAGTTATGTAA
1 TAAGTTATGTAA
61712537 TTTTAAAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
34 20 0.30
35 15 0.22
36 32 0.48
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (36 bp):
TAAGTTATGTAAGTTATGATACGATATATAGGTATA
Found at i:61714669 original size:19 final size:19
Alignment explanation
Indices: 61714641--61714692 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
61714631 TTGGGATTTT
61714641 GATTGGGGAAAATTT-AGG
1 GATTGGGGAAAATTTAAGG
61714659 GATTAGGGG-AAATTTAAGG
1 GATT-GGGGAAAATTTAAGG
*
61714678 AATTGGGGAAAATTT
1 GATTGGGGAAAATTT
61714693 GTTGGGGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.29
Consensus pattern (19 bp):
GATTGGGGAAAATTTAAGG
Found at i:61714671 original size:18 final size:18
Alignment explanation
Indices: 61714641--61714688 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
61714631 TTGGGATTTT
61714641 GATTGGGGAAAATTT-AGG
1 GATTGGGG-AAATTTAAGG
61714659 GATTAGGGGAAATTTAAGG
1 GATT-GGGGAAATTTAAGG
*
61714678 AATTGGGGAAA
1 GATTGGGGAAA
61714689 ATTTGTTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (18 bp):
GATTGGGGAAATTTAAGG
Found at i:61715182 original size:127 final size:124
Alignment explanation
Indices: 61714914--61715185 Score: 305
Period size: 124 Copynumber: 2.2 Consensus size: 124
61714904 TTTGCAGCGT
* * *
61714914 TTTTTTACCTAGCA-CCGCTAATGCCACTAAAGACGCTACCTAAAACGGCACCGTTTTAATTAAA
1 TTTTTCACCTAG-AGCCGCTAAAGCCACTAAAGACGCAACCTAAAACGGCACCGTTTTAATTAAA
* * ** * * *
61714978 GTAAAATGTTTTTTGTGGCGTTTTTTGAGTAGTGACACTAATGGTCGATCTATTGCGGCG
65 GTAAAATGTTTTTTGCGGCATTTTTTGACAAGCGACACTAATGCTCGATCTATTGCGGAG
* * * * ** *
61715038 TTTTTCACATAGTGCCGCTAAAGCCACTAAAGACGCAACTTAAAATGGTGCCGTTTTATTTAAAG
1 TTTTTCACCTAGAGCCGCTAAAGCCACTAAAGACGCAACCTAAAACGGCACCGTTTTAATTAAAG
* * *
61715103 TAAATTGTTTTTTTTTGCGGCATTTTTT-ACCAAGCGCCTCTAATGCTCGATCTATTGCGGAG
66 TAAAATG---TTTTTTGCGGCATTTTTTGA-CAAGCGACACTAATGCTCGATCTATTGCGGAG
61715165 TTTTTCACCTAGAGCCGCTAA
1 TTTTTCACCTAGAGCCGCTAA
61715186 TGCTAATAAA
Statistics
Matches: 121, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
124 60 0.50
126 1 0.01
127 60 0.50
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (124 bp):
TTTTTCACCTAGAGCCGCTAAAGCCACTAAAGACGCAACCTAAAACGGCACCGTTTTAATTAAAG
TAAAATGTTTTTTGCGGCATTTTTTGACAAGCGACACTAATGCTCGATCTATTGCGGAG
Found at i:61715515 original size:7 final size:7
Alignment explanation
Indices: 61715503--61715598 Score: 84
Period size: 7 Copynumber: 13.7 Consensus size: 7
61715493 CAAATTTTAT
61715503 CCCTAAA
1 CCCTAAA
61715510 CCCTAAA
1 CCCTAAA
* *
61715517 CCATAGA
1 CCCTAAA
61715524 CCCTAAA
1 CCCTAAA
* *
61715531 CCATATA
1 CCCTAAA
*
61715538 CCGTAAA
1 CCCTAAA
* *
61715545 TCTTAAA
1 CCCTAAA
61715552 CCCTAAA
1 CCCTAAA
61715559 CCCTAAA
1 CCCTAAA
61715566 CCCTAAA
1 CCCTAAA
*** *
61715573 TTATACA
1 CCCTAAA
61715580 CCCTAAA
1 CCCTAAA
*
61715587 CACTAAA
1 CCCTAAA
61715594 CCCTA
1 CCCTA
61715599 TATATATATT
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 67 1.00
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:61715785 original size:64 final size:64
Alignment explanation
Indices: 61715706--61715851 Score: 170
Period size: 64 Copynumber: 2.3 Consensus size: 64
61715696 CCGAACCCTT
* * * *
61715706 AAACCCTAACACCCTAACCTTAAAACCTT-AAACACTAAGACCCT-AACTACAAGACACTAAACC
1 AAACCATAA-ACCCTAAACTTAAAACCTTAAAACACTAA-ACCCTAAAC-ACAAAACACTAAACA
61715769 TC
63 TC
* * * * *
61715771 AAACCATAAACCCTAAACTTTAAACCTTAAAACACTAAACCCTAAACCCAAAATACTAATCATT
1 AAACCATAAACCCTAAACTTAAAACCTTAAAACACTAAACCCTAAACACAAAACACTAAACATC
61715835 AAACCATAAACCCTAAA
1 AAACCATAAACCCTAAA
61715852 ATCATAAACC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
64 50 0.71
65 20 0.29
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (64 bp):
AAACCATAAACCCTAAACTTAAAACCTTAAAACACTAAACCCTAAACACAAAACACTAAACATC
Found at i:61715788 original size:21 final size:21
Alignment explanation
Indices: 61715728--61715851 Score: 65
Period size: 21 Copynumber: 5.8 Consensus size: 21
61715718 CCTAACCTTA
*
61715728 AAACCTTAAACACTAAGACC-C
1 AAACCATAAACACTAA-ACCTC
* * *
61715749 TAACTACAAGACACTAAACCTC
1 AAACCATAA-ACACTAAACCTC
* * *
61715771 AAACCATAAACCCTAAACTTT
1 AAACCATAAACACTAAACCTC
*
61715792 AAACCTTAAAACACTAAACC-C
1 AAACCAT-AAACACTAAACCTC
* * * *
61715813 TAAACCCA-AAATACTAATCATT
1 -AAA-CCATAAACACTAAACCTC
*
61715835 AAACCATAAACCCTAAA
1 AAACCATAAACACTAAA
61715852 ATCATAAACC
Statistics
Matches: 74, Mismatches: 22, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
20 3 0.04
21 42 0.57
22 27 0.36
23 2 0.03
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.19
Consensus pattern (21 bp):
AAACCATAAACACTAAACCTC
Found at i:61715809 original size:29 final size:28
Alignment explanation
Indices: 61715763--61715817 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
61715753 TACAAGACAC
*
61715763 TAAACCTCAAACCATAAACCCTAAACTT
1 TAAACCTCAAAACATAAACCCTAAACTT
*
61715791 TAAACCTTAAAACACTAAACCCTAAAC
1 TAAACCTCAAAACA-TAAACCCTAAAC
61715818 CCAAAATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (28 bp):
TAAACCTCAAAACATAAACCCTAAACTT
Found at i:61715819 original size:7 final size:7
Alignment explanation
Indices: 61715699--61715908 Score: 59
Period size: 7 Copynumber: 29.3 Consensus size: 7
61715689 CAAAATCCCG
61715699 AACCCTTA
1 AACCC-TA
61715707 AACCCTA
1 AACCCTA
61715714 ACACCCT-
1 A-ACCCTA
*
61715721 AACCTTAA
1 AACCCT-A
*
61715729 AACCTTA
1 AACCCTA
*
61715736 AACACTA
1 AACCCTA
61715743 AGACCCT-
1 A-ACCCTA
*
61715750 AACTAC-A
1 AAC-CCTA
*
61715757 AGACACTA
1 A-ACCCTA
61715765 AA-CCTCA
1 AACCCT-A
*
61715772 AACCATA
1 AACCCTA
61715779 AACCCTA
1 AACCCTA
**
61715786 AACTTTA
1 AACCCTA
*
61715793 AACCTTAA
1 AACCCT-A
*
61715801 AACACTA
1 AACCCTA
61715808 AACCCTA
1 AACCCTA
*
61715815 AACCCAA
1 AACCCTA
**
61715822 AATACTA
1 AACCCTA
* **
61715829 ATCATTA
1 AACCCTA
*
61715836 AACCATA
1 AACCCTA
61715843 AACCCTAA
1 AACCCT-A
* *
61715851 AATCATA
1 AACCCTA
*
61715858 AACCATA
1 AACCCTA
* *
61715865 GACCTTA
1 AACCCTA
*
61715872 AACCTTA
1 AACCCTA
**
61715879 AACATTA
1 AACCCTA
* *
61715886 AATCTTA
1 AACCCTA
*
61715893 AAACCTA
1 AACCCTA
61715900 AACCCTA
1 AACCCTA
61715907 AA
1 AA
61715909 ATAAAATTAT
Statistics
Matches: 153, Mismatches: 37, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
6 8 0.05
7 109 0.71
8 36 0.24
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (7 bp):
AACCCTA
Done.