Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 64 of 170
Found at i:18898591 original size:114 final size:114
Alignment explanation
Indices: 18898391--18898615 Score: 423
Period size: 114 Copynumber: 2.0 Consensus size: 114
18898381 ACTTGGAGTC
18898391 TAATAAATTTTGTTATAAAAATAGTCTGTCATTTTAGTTTTGTTTCTTCAAATTATTTCAATTAT
1 TAATAAATTTTGTTATAAAAATAGTCTGTCATTTTAGTTTTGTTTCTTCAAATTATTTCAATTAT
18898456 AATATAAAATAACAAATCATGCAAAAAAGAAAAACCCTAAAACATTTTA
66 AATATAAAATAACAAATCATGCAAAAAAGAAAAACCCTAAAACATTTTA
*
18898505 TAATAAATTTTGTTATAAAAATAGTTTGTCATTTTAGTTTTGTTTCTTCAAATTATTTCAATTAT
1 TAATAAATTTTGTTATAAAAATAGTCTGTCATTTTAGTTTTGTTTCTTCAAATTATTTCAATTAT
* *
18898570 AATTTAACATAACAAATCATGCAAAAAAGAAAAACCCTAAAACATT
66 AATATAAAATAACAAATCATGCAAAAAAGAAAAACCCTAAAACATT
18898616 ATCCAAAGTT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (114 bp):
TAATAAATTTTGTTATAAAAATAGTCTGTCATTTTAGTTTTGTTTCTTCAAATTATTTCAATTAT
AATATAAAATAACAAATCATGCAAAAAAGAAAAACCCTAAAACATTTTA
Found at i:18899338 original size:18 final size:17
Alignment explanation
Indices: 18899296--18899343 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
18899286 TGTCGTTTGT
18899296 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
18899313 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
18899332 TTTCAAAACATT
1 TTTCAAAACATT
18899344 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:18904105 original size:12 final size:12
Alignment explanation
Indices: 18904088--18904118 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18904078 CTAATTGGTT
18904088 TATTATTATTAG
1 TATTATTATTAG
18904100 TATTATTATTAG
1 TATTATTATTAG
18904112 TATTATT
1 TATTATT
18904119 TCTCTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:18909498 original size:44 final size:44
Alignment explanation
Indices: 18909448--18909863 Score: 334
Period size: 44 Copynumber: 9.5 Consensus size: 44
18909438 TAAAACCACA
* *
18909448 AATCCTATCTCCCTGAAGTTGCAGTGTAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * *
18909492 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAATGAC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-GCCAAT
* * * * * ***
18909535 GATCTTATCTCTCTGAAGTTGCAG-AGAGAAGA-T--CGCGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* ** * * * *
18909575 AGTCTTATCTCCCTGATCTTGTAGCGAAGCAGACTGAATAAG-C-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAGCCAAT
*
18909619 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* ** *
18909663 AAT-TCTATCTCCCTGAAGTTGCAGCGGAGCAGGCTAAA-CAAAT
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * ***
18909706 AGATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGATGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
*
18909751 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
18909796 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* *
18909840 GATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
18909864 AGAGCATATC
Statistics
Matches: 290, Mismatches: 63, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
38 1 0.00
40 18 0.06
41 9 0.03
42 8 0.03
43 28 0.10
44 183 0.63
45 41 0.14
46 1 0.00
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:18909857 original size:133 final size:133
Alignment explanation
Indices: 18909619--18909863 Score: 375
Period size: 133 Copynumber: 1.8 Consensus size: 133
18909609 TGAATAAGCA
* *
18909619 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCAATAATTCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
*
18909684 CAGCGGAGCAGGCTAAACAAATAGATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGATG
66 CAGCGGAGCAGGCTAAACAAACAGATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGATG
18909749 ATG
131 ATG
*
18909752 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
* * *** * *
18909817 CAGTGGAGC-GGATTAAAGTGACAGATCTTATCTCTCTGAAGTTGCAG
66 CAGCGGAGCAGG-CTAAACAAACAGATCTTATCCCCCTGAAGTTGCAG
18909864 AGAGCATATC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
132 2 0.02
133 98 0.98
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
CAGCGGAGCAGGCTAAACAAACAGATCTTATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGATG
ATG
Found at i:18911779 original size:18 final size:18
Alignment explanation
Indices: 18911756--18911808 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
18911746 AATCGTGTCG
18911756 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
18911774 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
18911792 TTCAATTTCAAAACATT
1 TTCATTTTCAAAACATT
18911809 TTTTTATTCC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:18912828 original size:219 final size:217
Alignment explanation
Indices: 18912449--18912888 Score: 799
Period size: 219 Copynumber: 2.0 Consensus size: 217
18912439 CTAAGCTGCT
18912449 AGTAAATTAGGCTCGAGGCCTTTCAGTACACTTCCTCTAAACATTAAAATCCCCCAACCCAATAC
1 AGTAAATTAGGCTCGAGGCCTTTCAGTACACTTCCTCTAAACATTAAAATCCCCCAACCCAATAC
18912514 AATGCAATATACAGATATGACGTGTTATAACATAATATCATGCATGTAAATAGGGCATACAGTAT
66 AATGCAATATACAGATATGACGTGTTATAACATAATATCATGCATGTAAATAGGGCATACAGTAT
* **
18912579 CAAATTAATGGGACATCATCAGGCTTAATCATATCAGTCATACAGTCATTTCAGTCAATTAGGGG
131 CAAATCAATGGGACATCATCAGGCTTAATCATATCAGTCATACAGTCATTTCAGTCAA-T-CCGG
18912644 TCTAGGTAAGCTTACCGACCCTAC
194 TCTAGGTAAGCTTACCGACCCTAC
* *
18912668 AGTAAATTAGGCTCGAGGCCTTTCAGTACACTTCCTCTGAACATTAAAATCCCCTAACCCAATAC
1 AGTAAATTAGGCTCGAGGCCTTTCAGTACACTTCCTCTAAACATTAAAATCCCCCAACCCAATAC
*
18912733 AATGCAATATACGGATATGACGTGTTATAACATAATATCATGCATGTAAATAGGGCATACAGTAT
66 AATGCAATATACAGATATGACGTGTTATAACATAATATCATGCATGTAAATAGGGCATACAGTAT
*
18912798 CAAATCAATGGGACATCATCAGGCTTAATCATATCAGTCATACAGTCATTTCAGTCAATCCTGTC
131 CAAATCAATGGGACATCATCAGGCTTAATCATATCAGTCATACAGTCATTTCAGTCAATCCGGTC
18912863 TAGGTAAGCTTACCGACCCTAC
196 TAGGTAAGCTTACCGACCCTAC
18912885 AGTA
1 AGTA
18912889 GGCCCACAGT
Statistics
Matches: 214, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
217 29 0.14
218 1 0.00
219 184 0.86
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (217 bp):
AGTAAATTAGGCTCGAGGCCTTTCAGTACACTTCCTCTAAACATTAAAATCCCCCAACCCAATAC
AATGCAATATACAGATATGACGTGTTATAACATAATATCATGCATGTAAATAGGGCATACAGTAT
CAAATCAATGGGACATCATCAGGCTTAATCATATCAGTCATACAGTCATTTCAGTCAATCCGGTC
TAGGTAAGCTTACCGACCCTAC
Found at i:18916318 original size:23 final size:22
Alignment explanation
Indices: 18916292--18916339 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
18916282 GACAACAGTC
*
18916292 AGGTAAACAAGGTAGAAAATATA
1 AGGTAAACAAGGCAGAAAATA-A
*
18916315 AGGTAAGCAAGGCAGAAAATAA
1 AGGTAAACAAGGCAGAAAATAA
18916337 AGG
1 AGG
18916340 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.12
Consensus pattern (22 bp):
AGGTAAACAAGGCAGAAAATAA
Found at i:18924959 original size:43 final size:42
Alignment explanation
Indices: 18924905--18925096 Score: 183
Period size: 43 Copynumber: 4.5 Consensus size: 42
18924895 CAGTGCCATA
* * * * *
18924905 TCCCTGATATGGACTTACATGTTATCACATATCGATGTCAATAG
1 TCCCAGATATGGTCTTACACG-AATCACATATCGATGCCAAT-G
* *
18924949 -CCCAGCTATGGTCTTACACGAATCATATATCGATGCCAATG
1 TCCCAGATATGGTCTTACACGAATCACATATCGATGCCAATG
18924990 TCCCAGATATGGTCTTACACGAAATCACATAAT-GATGCCAATG
1 TCCCAGATATGGTCTTACACG-AATCACAT-ATCGATGCCAATG
* * * * *
18925033 TCCCAGACATGGTATTACACGTAATCACATATATCAATACC-ATA
1 TCCCAGATATGGTCTTACACG-AATCAC--ATATCGATGCCAATG
*
18925077 TCCTAGATATGGTCTTACAC
1 TCCCAGATATGGTCTTACAC
18925097 AAAGTCTCAT
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 36 0.29
43 58 0.47
44 23 0.19
45 6 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACACGAATCACATATCGATGCCAATG
Found at i:18924995 original size:42 final size:43
Alignment explanation
Indices: 18924928--18925148 Score: 170
Period size: 44 Copynumber: 5.1 Consensus size: 43
18924918 CTTACATGTT
* *
18924928 ATCACATATCGATGTCAATAG-CCCAGCTATGGTCTTACACG-A
1 ATCATATATCGATGCCAAT-GTCCCAGCTATGGTCTTACACGAA
*
18924970 ATCATATATCGATGCCAATGTCCCAGATATGGTCTTACACGAA
1 ATCATATATCGATGCCAATGTCCCAGCTATGGTCTTACACGAA
* * *
18925013 ATCACATAAT-GATGCCAATGTCCCAGAC-ATGGTATTACACGTA
1 ATCATAT-ATCGATGCCAATGTCCCAG-CTATGGTCTTACACGAA
* * * * *
18925056 ATCACATATATCAATACC-ATATCCTAGATATGGTCTTACAC-AA
1 AT--CATATATCGATGCCAATGTCCCAGCTATGGTCTTACACGAA
* * * *
18925099 AGTCTCATATATTGATGTC-ATAG-CCCAACTATGGTCTTATACGAA
1 A---TCATATATCGATGCCAAT-GTCCCAGCTATGGTCTTACACGAA
18925144 ATCAT
1 ATCAT
18925149 GTAATGCCAT
Statistics
Matches: 142, Mismatches: 24, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
41 1 0.01
42 40 0.28
43 40 0.28
44 49 0.35
45 11 0.08
46 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ATCATATATCGATGCCAATGTCCCAGCTATGGTCTTACACGAA
Found at i:18925053 original size:85 final size:86
Alignment explanation
Indices: 18924900--18925096 Score: 215
Period size: 85 Copynumber: 2.3 Consensus size: 86
18924890 ATATACAGTG
* * * ** * *
18924900 CCATATCCCTGATATGGACTTACATGTTATCACATATCGATGTCAATAGCCCAGCTATGGTCTTA
1 CCATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATAGCCCAGCTATGGTATTA
* *
18924965 CACG-AAT-CATATATCGATG
66 CACGTAATACATATATCAATA
*
18924984 CCAATGTCCCAGATATGGTCTTACACGAAATCACATAAT-GATGCCAAT-GTCCCAGAC-ATGGT
1 CC-ATATCCCAGATATGGTCTTACACGAAATCACAT-ATCGATGCCAATAG-CCCAG-CTATGGT
18925046 ATTACACGTAATCACATATATCAATA
62 ATTACACGTAAT-ACATATATCAATA
*
18925072 CCATATCCTAGATATGGTCTTACAC
1 CCATATCCCAGATATGGTCTTACAC
18925097 AAAGTCTCAT
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
84 3 0.03
85 52 0.55
86 6 0.06
87 21 0.22
88 12 0.13
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (86 bp):
CCATATCCCAGATATGGTCTTACACGAAATCACATATCGATGCCAATAGCCCAGCTATGGTATTA
CACGTAATACATATATCAATA
Found at i:18925096 original size:44 final size:44
Alignment explanation
Indices: 18924933--18925115 Score: 189
Period size: 43 Copynumber: 4.2 Consensus size: 44
18924923 ATGTTATCAC
* *
18924933 ATATCGATGTCAATAG-CCCAGCTATGGTCTTACACGAAT--CAT
1 ATATCGATGCCAAT-GTCCCAGATATGGTCTTACACGAATCACAT
18924975 ATATCGATGCCAATGTCCCAGATATGGTCTTACACGAAATCACAT
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACACG-AATCACAT
* *
18925020 A-AT-GATGCCAATGTCCCAGACATGGTATTACACGTAATCACAT
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACACG-AATCACAT
* * * * * *
18925063 ATATCAATACC-ATATCCTAGATATGGTCTTACACAAAGTCTCAT
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACACGAA-TCACAT
*
18925107 ATATTGATG
1 ATATCGATG
18925116 TCATAGCCCA
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 32 0.27
43 43 0.36
44 34 0.29
45 8 0.07
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCCAGATATGGTCTTACACGAATCACAT
Found at i:18927848 original size:27 final size:27
Alignment explanation
Indices: 18927817--18927875 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
18927807 TAGGTGTAAG
*
18927817 TGATTTTCATAAGTAACTAAGTGTATA
1 TGATTTTCATAAGCAACTAAGTGTATA
* * *
18927844 TGATTTTGATAAGCGACTAAGTGTATG
1 TGATTTTCATAAGCAACTAAGTGTATA
18927871 TGATT
1 TGATT
18927876 CGGATTCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
TGATTTTCATAAGCAACTAAGTGTATA
Found at i:18931548 original size:20 final size:21
Alignment explanation
Indices: 18931523--18931561 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
18931513 TGTGCATGGA
18931523 TGTAAC-TCCTTTT-TCAAATT
1 TGTAACAT-CTTTTCTCAAATT
18931543 TGTAACATCTTTTCTCAAA
1 TGTAACATCTTTTCTCAAA
18931562 GTTATTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (21 bp):
TGTAACATCTTTTCTCAAATT
Found at i:18942202 original size:42 final size:42
Alignment explanation
Indices: 18942147--18942239 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
18942137 GCTGGTGTGA
18942147 TATATCAGGCTAAAAGCCTAGCAGGCGTAGTACT-GGTGAATT
1 TATATCAGGCTAAAAGCCTAGCAGGCGTAGT-CTCGGTGAATT
*
18942189 TATATCAGGCTAAAAGCCTAGCAGGCGTAGTGTCGGTGAATT
1 TATATCAGGCTAAAAGCCTAGCAGGCGTAGTCTCGGTGAATT
*
18942231 TCTATCAGG
1 TATATCAGG
18942240 TTTGTGCCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (42 bp):
TATATCAGGCTAAAAGCCTAGCAGGCGTAGTCTCGGTGAATT
Found at i:18943179 original size:13 final size:13
Alignment explanation
Indices: 18943161--18943188 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18943151 TAGGTTAAAT
18943161 TTGGTCATATTGC
1 TTGGTCATATTGC
18943174 TTGGTCATATTGC
1 TTGGTCATATTGC
18943187 TT
1 TT
18943189 TTGACATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGGTCATATTGC
Found at i:18948446 original size:28 final size:27
Alignment explanation
Indices: 18948403--18948499 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 27
18948393 CTGAGATGCA
* *
18948403 TTATCAGAACAGAACATCACCGTAGTGC
1 TTAT-AGAACAAAACAACACCGTAGTGC
* * * *
18948431 TTATCATATCAAAACAAAACCGGAGTGC
1 TTAT-AGAACAAAACAACACCGTAGTGC
*
18948459 TTAATAGAACAGAACAACACCGTAGTGC
1 TT-ATAGAACAAAACAACACCGTAGTGC
*
18948487 TTAACAGAACAAA
1 TT-ATAGAACAAA
18948500 TGGCACACTA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 53 0.96
29 2 0.04
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (27 bp):
TTATAGAACAAAACAACACCGTAGTGC
Found at i:18948609 original size:98 final size:98
Alignment explanation
Indices: 18948451--18948636 Score: 273
Period size: 98 Copynumber: 1.9 Consensus size: 98
18948441 AAAACAAAAC
* * *
18948451 CGGAGTGCTTAATAGAACAGAACAACACCGTAGTGCTTAACAGAACAAATGGCACACTAATCCTC
1 CGGAGTGCTTAACAGAACAGAACAACACCGTAGTGCTAAACAGAACAAAGGGCACACTAATCCTC
**
18948516 CTTAATGACATGCCATATATATCAGAACAATGT
66 CTTAACAACATGCCATATATATCAGAACAATGT
** *** *
18948549 CGGAGTGCTTAACAGAACAGAACAACACCGTAGTGCTAAACAGAACAGGGGGCGTGCTAATTCTC
1 CGGAGTGCTTAACAGAACAGAACAACACCGTAGTGCTAAACAGAACAAAGGGCACACTAATCCTC
18948614 CTTAACAACATGCCATATATATC
66 CTTAACAACATGCCATATATATC
18948637 CTAATAGTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (98 bp):
CGGAGTGCTTAACAGAACAGAACAACACCGTAGTGCTAAACAGAACAAAGGGCACACTAATCCTC
CTTAACAACATGCCATATATATCAGAACAATGT
Found at i:18965912 original size:73 final size:73
Alignment explanation
Indices: 18965786--18965953 Score: 189
Period size: 73 Copynumber: 2.3 Consensus size: 73
18965776 ACAAATGGAA
* * * *
18965786 TACTAATTCTACTGAAAGTGCTCAACAAGCAATATCTATTGATCCTACTGAATA-TGCTCAAACG
1 TACTGATTCTACTG-AAGTGCTCAACAAGCAATATCTACTGATCCTACCGAATAGTGCTCAAACA
*
18965850 AGCAATGTC
65 AGCAATATC
* * *
18965859 TACTGATTCTACTGAAGTGCTCAAACGAG-AGGTATCTACTGATTCTACCGAATAGTTGCTCAAA
1 TACTGATTCTACTGAAGTGCTC-AACAAGCA-ATATCTACTGATCCTACCGAATAG-TGCTCAAA
18965923 CAAGCAATATC
63 CAAGCAATATC
* *
18965934 CACTGATTATACTGAA-TGCT
1 TACTGATTCTACTGAAGTGCT
18965954 TACTCAAACG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
72 9 0.11
73 37 0.46
74 4 0.05
75 31 0.38
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (73 bp):
TACTGATTCTACTGAAGTGCTCAACAAGCAATATCTACTGATCCTACCGAATAGTGCTCAAACAA
GCAATATC
Found at i:18965939 original size:39 final size:38
Alignment explanation
Indices: 18965786--18965990 Score: 192
Period size: 39 Copynumber: 5.5 Consensus size: 38
18965776 ACAAATGGAA
* *
18965786 TACTAATTCTACTGAA-AGTGCTC-AACAAGCAATATC
1 TACTGATTCTACTGAATAGTGCTCAAACGAGCAATATC
* * *
18965822 TATTGATCCTACTGAATA-TGCTCAAACGAGCAATGTC
1 TACTGATTCTACTGAATAGTGCTCAAACGAGCAATATC
*
18965859 TACTGATTCTACTG-A-AGTGCTCAAACGAG-AGGTATC
1 TACTGATTCTACTGAATAGTGCTCAAACGAGCA-ATATC
* *
18965895 TACTGATTCTACCGAATAGTTGCTCAAACAAGCAATATC
1 TACTGATTCTACTGAATAG-TGCTCAAACGAGCAATATC
* * * *
18965934 CACTGATTATACTGAAT-GCTTACTCAAACGAGCATTAT-
1 TACTGATTCTACTGAATAG--TGCTCAAACGAGCAATATC
*
18965972 TCACTGATTATACTGAATA
1 T-ACTGATTCTACTGAATA
18965991 AGATTTTCTA
Statistics
Matches: 139, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
35 2 0.01
36 47 0.34
37 25 0.18
38 3 0.02
39 61 0.44
40 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (38 bp):
TACTGATTCTACTGAATAGTGCTCAAACGAGCAATATC
Found at i:18969738 original size:20 final size:20
Alignment explanation
Indices: 18969713--18969751 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18969703 AGAATAAATT
* *
18969713 GGAAAAATTTGGAAATTTTA
1 GGAAAAAGTTGAAAATTTTA
18969733 GGAAAAAGTTGAAAATTTT
1 GGAAAAAGTTGAAAATTTT
18969752 GAACTACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (20 bp):
GGAAAAAGTTGAAAATTTTA
Found at i:18971442 original size:14 final size:15
Alignment explanation
Indices: 18971407--18971444 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
18971397 GTGGCTGGTT
*
18971407 CGGTTC-ACTAGATT
1 CGGTTCAACTAGATG
18971421 CGGTTCAACTA-ATG
1 CGGTTCAACTAGATG
18971435 CGGTTCAACT
1 CGGTTCAACT
18971445 GGACCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (15 bp):
CGGTTCAACTAGATG
Found at i:18971752 original size:18 final size:19
Alignment explanation
Indices: 18971719--18971759 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
18971709 ATGTTCATAT
18971719 TTTTAAAATAATTTAATTA
1 TTTTAAAATAATTTAATTA
*
18971738 TTTTATAAT-ATTTAATTA
1 TTTTAAAATAATTTAATTA
18971756 TTTT
1 TTTT
18971760 TCGACAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAAAATAATTTAATTA
Found at i:18971760 original size:19 final size:20
Alignment explanation
Indices: 18971716--18971760 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
18971706 ATCATGTTCA
18971716 TATTTTTAAAATAATTTAAT
1 TATTTTTAAAATAATTTAAT
*
18971736 TA-TTTTATAAT-ATTTAAT
1 TATTTTTAAAATAATTTAAT
18971754 TATTTTT
1 TATTTTT
18971761 CGACAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 12 0.52
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTAAT
Found at i:18983305 original size:33 final size:33
Alignment explanation
Indices: 18983226--18983377 Score: 180
Period size: 33 Copynumber: 4.5 Consensus size: 33
18983216 TACATCATCC
* * *
18983226 ATCCAACCAAACACACCAGATGCTCACT-TGAGCCA
1 ATCCAACC-ATCACACCA-ATGCTCA-TAAGAGCTA
** *
18983261 ATCCATTCATCACACCAATACTCATAAGAGCTA
1 ATCCAACCATCACACCAATGCTCATAAGAGCTA
*
18983294 ATCCAACCATCACACCAATGCTTATAAGAGCTA
1 ATCCAACCATCACACCAATGCTCATAAGAGCTA
* *
18983327 AACCAACCATCACACTAATGCTCATAAGAGCTA
1 ATCCAACCATCACACCAATGCTCATAAGAGCTA
*
18983360 ATCCAACCAGCACACCAA
1 ATCCAACCATCACACCAA
18983378 ATAGAGAGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
32 1 0.01
33 85 0.85
34 8 0.08
35 6 0.06
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.18
Consensus pattern (33 bp):
ATCCAACCATCACACCAATGCTCATAAGAGCTA
Found at i:18990166 original size:23 final size:23
Alignment explanation
Indices: 18990140--18990261 Score: 79
Period size: 23 Copynumber: 5.3 Consensus size: 23
18990130 ATAAGTGCCA
18990140 CACTAATATGTAGCCGATGCTAC
1 CACTAATATGTAGCCGATGCTAC
* *
18990163 CACTGATACGTAGCCG-TAGCTAC
1 CACTAATATGTAGCCGAT-GCTAC
* * *
18990186 CATTGAA-ATGTAGCTGAAGCTAC
1 CACT-AATATGTAGCCGATGCTAC
* * *
18990209 AACTGATATGTAGCTG-TAGCTAC
1 CACTAATATGTAGCCGAT-GCTAC
* * * *
18990232 CATTAAAATGTAGCAGAAGCTAC
1 CACTAATATGTAGCCGATGCTAC
*
18990255 TACTAAT
1 CACTAAT
18990262 CAATAACACT
Statistics
Matches: 73, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
22 2 0.03
23 70 0.96
24 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (23 bp):
CACTAATATGTAGCCGATGCTAC
Found at i:18990214 original size:46 final size:46
Alignment explanation
Indices: 18990147--18990254 Score: 153
Period size: 46 Copynumber: 2.3 Consensus size: 46
18990137 CCACACTAAT
* * * *
18990147 ATGTAGCCGATGCTACCACTGATACGTAGCCGTAGCTACCATTGAA
1 ATGTAGCAGAAGCTACAACTGATACGTAGCCGTAGCTACCATTAAA
* * *
18990193 ATGTAGCTGAAGCTACAACTGATATGTAGCTGTAGCTACCATTAAA
1 ATGTAGCAGAAGCTACAACTGATACGTAGCCGTAGCTACCATTAAA
18990239 ATGTAGCAGAAGCTAC
1 ATGTAGCAGAAGCTAC
18990255 TACTAATCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (46 bp):
ATGTAGCAGAAGCTACAACTGATACGTAGCCGTAGCTACCATTAAA
Found at i:18990747 original size:31 final size:29
Alignment explanation
Indices: 18990708--18990767 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
18990698 GTCCTTGACT
18990708 TAAAATTTGGCAAAATTACAATTTTTCCCC
1 TAAAATTT-GCAAAATTACAATTTTTCCCC
* * *
18990738 TAAATATTTGCATATTTACACTTTTTCCCC
1 TAAA-ATTTGCAAAATTACAATTTTTCCCC
18990768 GAAGCTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.42
Consensus pattern (29 bp):
TAAAATTTGCAAAATTACAATTTTTCCCC
Found at i:19001074 original size:32 final size:33
Alignment explanation
Indices: 19000966--19001108 Score: 175
Period size: 33 Copynumber: 4.4 Consensus size: 33
19000956 TCCAATCCAT
**
19000966 CCATCACAAAAATGCTCATAAGAGCT-AACTCAA
1 CCATCACACCAATGCTCATAAGAGCTAAAC-CAA
* *
19000999 CCATCACACCAATTCTCATAAGAG-TGAAACGAA
1 CCATCACACCAATGCTCATAAGAGCT-AAACCAA
19001032 CCATCACACCAATGCTCATAAGAG-TAAACCAA
1 CCATCACACCAATGCTCATAAGAGCTAAACCAA
* *
19001064 CCATCGCACCAATGCTCATAAGAGCTAATCCAA
1 CCATCACACCAATGCTCATAAGAGCTAAACCAA
* *
19001097 CTAGCACACCAA
1 CCATCACACCAA
19001109 ATAGAGAGTA
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
32 30 0.31
33 63 0.66
34 3 0.03
ACGTcount: A:0.42, C:0.31, G:0.10, T:0.17
Consensus pattern (33 bp):
CCATCACACCAATGCTCATAAGAGCTAAACCAA
Found at i:19001105 original size:65 final size:66
Alignment explanation
Indices: 19000976--19001108 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 66
19000966 CCATCACAAA
* * *
19000976 AATGCTCATAAGAGCTAACTCAACCATCACACCAATTCTCATAAGAGTGAAACGAACCATCACAC
1 AATGCTCATAAGAGCTAACTCAACCATCACACCAATGCTCATAAGAGTGAAACCAACCAGCACAC
19001041 C
66 C
* * *
19001042 AATGCTCATAAGAG-TAAAC-CAACCATCGCACCAATGCTCATAAGAGCT-AATCCAACTAGCAC
1 AATGCTCATAAGAGCT-AACTCAACCATCACACCAATGCTCATAAGAG-TGAAACCAACCAGCAC
19001104 ACC
64 ACC
19001107 AA
1 AA
19001109 ATAGAGAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
65 41 0.69
66 18 0.31
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.17
Consensus pattern (66 bp):
AATGCTCATAAGAGCTAACTCAACCATCACACCAATGCTCATAAGAGTGAAACCAACCAGCACAC
C
Found at i:19004693 original size:73 final size:74
Alignment explanation
Indices: 19004572--19004884 Score: 285
Period size: 73 Copynumber: 4.2 Consensus size: 74
19004562 AAAAATGGAA
* * * *
19004572 TACTGATTCTACTGAAAGTGCTCAACA--AGTAATATCTACTAATCCTACTGAATGTGCTCAAAC
1 TACTGATTCTACTGAATGTGCTCAA-ATGAGCAATATCTACTGATTCTACTGAATGTGCTCAAAC
*
19004635 GAGCAATGTC
65 GAGCAATATC
* * * *
19004645 TACTGATTCTACTGAA-GTACTTAAATGAGCAATATCTATTGATTCTACTGAAAGTGCTC-AACG
1 TACTGATTCTACTGAATGTGCTCAAATGAGCAATATCTACTGATTCTACTGAATGTGCTCAAACG
*
19004708 AGTAATATC
66 AGCAATATC
* * * * * * * *
19004717 TACTGATCCTACTAAATGTGCTAAAATGAGCCATGTCTACTGGTTCTACAGAA-GTGCTCAAATG
1 TACTGATTCTACTGAATGTGCTCAAATGAGCAATATCTACTGATTCTACTGAATGTGCTCAAACG
19004781 AGCAATATC
66 AGCAATATC
* * * * * * *
19004790 TACTAATTCTATTGAATTGTTGCTCAAACGAGCAATATCCATTGATTATACTAAATGCTTGCTCA
1 TACTGATTCTACTGAA-TG-TGCTCAAATGAGCAATATCTACTGATTCTACTGAATG--TGCTCA
*
19004855 AACGAGCATTATC
62 AACGAGCAATATC
* * *
19004868 CACTGATTATATTGAAT
1 TACTGATTCTACTGAAT
19004885 CAGGTTTTCT
Statistics
Matches: 192, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
71 1 0.01
72 37 0.19
73 95 0.49
74 2 0.01
75 25 0.13
76 1 0.01
77 1 0.01
78 30 0.16
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (74 bp):
TACTGATTCTACTGAATGTGCTCAAATGAGCAATATCTACTGATTCTACTGAATGTGCTCAAACG
AGCAATATC
Found at i:19004771 original size:109 final size:109
Alignment explanation
Indices: 19004572--19004862 Score: 357
Period size: 109 Copynumber: 2.6 Consensus size: 109
19004562 AAAAATGGAA
* * * *
19004572 TACTGATTCTACTGAAAGTGCTCAACAAGTAATATCTACTAATCCTACTGAATGTGCTCAAACGA
1 TACTGATTCTACTGAAAGTGCTCAACGAGTAATATCTACTGATCCTACTAAATGTGCTAAAACGA
* *
19004637 GCAATGTCTACTGATTCTACTGAAGTACTTAAATGAGCAATATC
66 GCAATGTCTACTGATTCTACAGAAGTACTCAAATGAGCAATATC
* *
19004681 TATTGATTCTACTGAAAGTGCTCAACGAGTAATATCTACTGATCCTACTAAATGTGCTAAAATGA
1 TACTGATTCTACTGAAAGTGCTCAACGAGTAATATCTACTGATCCTACTAAATGTGCTAAAACGA
* * *
19004746 GCCATGTCTACTGGTTCTACAGAAGTGCTCAAATGAGCAATATC
66 GCAATGTCTACTGATTCTACAGAAGTACTCAAATGAGCAATATC
* * * * * * ** *
19004790 TACTAATTCTATTGAATTGTTGCTCAAACGAGCAATATCCATTGATTATACTAAATGCTTGCTCA
1 TACTGATTCTACTGAA-AG-TGCTC-AACGAGTAATATCTACTGATCCTACTAAATG--TGCTAA
19004855 AACGAGCA
61 AACGAGCA
19004863 TTATCCACTG
Statistics
Matches: 154, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
109 111 0.72
110 1 0.01
111 5 0.03
112 26 0.17
114 11 0.07
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (109 bp):
TACTGATTCTACTGAAAGTGCTCAACGAGTAATATCTACTGATCCTACTAAATGTGCTAAAACGA
GCAATGTCTACTGATTCTACAGAAGTACTCAAATGAGCAATATC
Found at i:19004780 original size:36 final size:36
Alignment explanation
Indices: 19004572--19004875 Score: 245
Period size: 36 Copynumber: 8.2 Consensus size: 36
19004562 AAAAATGGAA
*
19004572 TACTGATTCTACTGAAAGTGCTCAACA--AGTAATATC
1 TACTGATTCTACTG-AAGTGCTCAA-ATGAGCAATATC
* * * *
19004608 TACTAATCCTACTGAATGTGCTCAAACGAGCAATGTC
1 TACTGATTCTACTGAA-GTGCTCAAATGAGCAATATC
* *
19004645 TACTGATTCTACTGAAGTACTTAAATGAGCAATATC
1 TACTGATTCTACTGAAGTGCTCAAATGAGCAATATC
* * *
19004681 TATTGATTCTACTGAAAGTGCTC-AACGAGTAATATC
1 TACTGATTCTACTG-AAGTGCTCAAATGAGCAATATC
* * * * *
19004717 TACTGATCCTACTAAATGTGCTAAAATGAGCCATGTC
1 TACTGATTCTACTGAA-GTGCTCAAATGAGCAATATC
* *
19004754 TACTGGTTCTACAGAAGTGCTCAAATGAGCAATATC
1 TACTGATTCTACTGAAGTGCTCAAATGAGCAATATC
* * *
19004790 TACTAATTCTATTGAATTGTTGCTCAAACGAGCAATATC
1 TACTGATTCTACTGAA--G-TGCTCAAATGAGCAATATC
* * * * * *
19004829 CATTGATTATACTAAATGCTTGCTCAAACGAGCATTATC
1 TACTGATTCTACTGAA-G--TGCTCAAATGAGCAATATC
*
19004868 CACTGATT
1 TACTGATT
19004876 ATATTGAATC
Statistics
Matches: 215, Mismatches: 43, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
35 5 0.02
36 105 0.49
37 48 0.22
38 3 0.01
39 54 0.25
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (36 bp):
TACTGATTCTACTGAAGTGCTCAAATGAGCAATATC
Found at i:19009573 original size:15 final size:15
Alignment explanation
Indices: 19009553--19009582 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19009543 AATTAATTCC
19009553 ATTAGTTTAATTTAA
1 ATTAGTTTAATTTAA
19009568 ATTAGTTTAATTTAA
1 ATTAGTTTAATTTAA
19009583 TTTCTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTAGTTTAATTTAA
Found at i:19022093 original size:85 final size:85
Alignment explanation
Indices: 19021945--19022118 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 85
19021935 TACTATTAAA
19021945 AAGAGCATAAATATGATTAATATATTATGAGTGGGCTTAAAGCAAGTAACTTATGTTTAGGTAAT
1 AAGAGCATAAATATGATTAATATATTATGAGTGGGCTTAAAGCAAGTAACTTATGTTTAGGTAAT
19022010 AAATGAACTAACTAAATTAG
66 AAATGAACTAACTAAATTAG
*
19022030 AAGAGCATAAATATGATTAATATATTATGAGTGGGCTTAAAGCAAGTAACTTATGTTTTGGTAAT
1 AAGAGCATAAATATGATTAATATATTATGAGTGGGCTTAAAGCAAGTAACTTATGTTTAGGTAAT
19022095 AAATGAACTAACTAAATTAG
66 AAATGAACTAACTAAATTAG
19022115 AAGA
1 AAGA
19022119 TGGTTTCTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (85 bp):
AAGAGCATAAATATGATTAATATATTATGAGTGGGCTTAAAGCAAGTAACTTATGTTTAGGTAAT
AAATGAACTAACTAAATTAG
Found at i:19023753 original size:15 final size:15
Alignment explanation
Indices: 19023733--19023761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19023723 TTCACGTTGC
19023733 CCTGGTGTAGACCCT
1 CCTGGTGTAGACCCT
19023748 CCTGGTGTAGACCC
1 CCTGGTGTAGACCC
19023762 AAATCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (15 bp):
CCTGGTGTAGACCCT
Found at i:19024527 original size:27 final size:27
Alignment explanation
Indices: 19024497--19024566 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
19024487 TATACGTACA
* *
19024497 ATCCCTACAGAGTTTGTCGCACATACT
1 ATCCCTTCAGAGTTTGTCACACATACT
* ** *
19024524 ATCCCTTTAGAGTTCATCACATATACT
1 ATCCCTTCAGAGTTTGTCACACATACT
19024551 ATCCCTTCAGAGTTTG
1 ATCCCTTCAGAGTTTG
19024567 AATAGAGGTC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (27 bp):
ATCCCTTCAGAGTTTGTCACACATACT
Found at i:19027486 original size:16 final size:15
Alignment explanation
Indices: 19027463--19027506 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
19027453 ATTTATTACT
19027463 ATTA-TATTATATTA
1 ATTATTATTATATTA
* *
19027477 ATTTTGTATTATAATA
1 ATTAT-TATTATATTA
19027493 ATTATTATTATATT
1 ATTATTATTATATT
19027507 TCTATTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
ATTATTATTATATTA
Found at i:19039042 original size:45 final size:44
Alignment explanation
Indices: 19038936--19039052 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
19038926 CATCATGGCA
* * * ** *
19038936 AATCTCATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAACACG
* *
19038980 AATCTTATCTCCCTGAAGTTGCAGTGGTGCAGACTGAAAATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAACA-CG
* **
19039025 AATCTTATTTCCCTGAAGTCACAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
19039053 ACAAATTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 35 0.58
45 25 0.42
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAACACG
Found at i:19040088 original size:48 final size:48
Alignment explanation
Indices: 19039999--19040091 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
19039989 TTTCTTGGCT
* * *
19039999 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAATCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAATCG
19040047 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAA
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAA
19040092 CAAAATTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAATCG
Found at i:19042603 original size:48 final size:48
Alignment explanation
Indices: 19042514--19042607 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
19042504 TTTCTTGGCT
* * *
19042514 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
19042562 TAAAAATGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
19042608 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:19045903 original size:15 final size:15
Alignment explanation
Indices: 19045885--19045935 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
19045875 TCAGCCGTGT
19045885 GTGACACATGGCTTG
1 GTGACACATGGCTTG
*
19045900 GTG--ACATGGCCGTG
1 GTGACACATGG-CTTG
19045914 TGTGACACATGGCTTG
1 -GTGACACATGGCTTG
19045930 GTGACA
1 GTGACA
19045936 TGGTCATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.20
14 3 0.10
15 12 0.40
16 3 0.10
17 6 0.20
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (15 bp):
GTGACACATGGCTTG
Found at i:19045908 original size:13 final size:13
Alignment explanation
Indices: 19045890--19045938 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
19045880 CGTGTGTGAC
19045890 ACATGGCTTGGTG
1 ACATGGCTTGGTG
*
19045903 ACATGGCCGTGTGTG
1 ACATGG-CTTG-GTG
19045918 ACACATGGCTTGGTG
1 --ACATGGCTTGGTG
19045933 ACATGG
1 ACATGG
19045939 TCATGTGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 12 0.40
14 3 0.10
15 6 0.20
16 3 0.10
17 6 0.20
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.27
Consensus pattern (13 bp):
ACATGGCTTGGTG
Found at i:19045912 original size:30 final size:30
Alignment explanation
Indices: 19045878--19045938 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
19045868 ATGTGACTCA
19045878 GCCGTGTGTGACACATGGCTTGGTGACATG
1 GCCGTGTGTGACACATGGCTTGGTGACATG
19045908 GCCGTGTGTGACACATGGCTTGGTGACATG
1 GCCGTGTGTGACACATGGCTTGGTGACATG
19045938 G
1 G
19045939 TCATGTGTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.20, G:0.38, T:0.26
Consensus pattern (30 bp):
GCCGTGTGTGACACATGGCTTGGTGACATG
Found at i:19045946 original size:30 final size:30
Alignment explanation
Indices: 19045882--19045946 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
19045872 GACTCAGCCG
*
19045882 TGTGTGACACATGGCTTGGTGACATGGCCG
1 TGTGTGACACATGGCTTGGTGACATGGCCA
*
19045912 TGTGTGACACATGGCTTGGTGACATGGTCA
1 TGTGTGACACATGGCTTGGTGACATGGCCA
19045942 TGTGT
1 TGTGT
19045947 CCCCTGTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (30 bp):
TGTGTGACACATGGCTTGGTGACATGGCCA
Found at i:19049501 original size:50 final size:50
Alignment explanation
Indices: 19049431--19049553 Score: 120
Period size: 50 Copynumber: 2.5 Consensus size: 50
19049421 TCCCAGATAT
* ** * * *
19049431 GGTCTTACATGGGAGTTCTCATATCGATGCCCATGTCAAGTCCCAAACAC
1 GGTCTTACAGGGGACCTCTCATATCGATGCCAACGCCAAGTCCCAAACAC
* * * * * * *
19049481 GGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACAT
1 GGTCTTACAGGGGACCTCTCATATCGATGCCAACGCCAAGTCCCAAACAC
*
19049531 GGTCTTACATGGGACCTCTCATA
1 GGTCTTACAGGGGACCTCTCATA
19049554 ATCTCAATGA
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
GGTCTTACAGGGGACCTCTCATATCGATGCCAACGCCAAGTCCCAAACAC
Found at i:19065632 original size:39 final size:41
Alignment explanation
Indices: 19065531--19065714 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
19065521 TCGAATGATG
* *
19065531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
19065571 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
19065611 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
19065650 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
19065689 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19065715 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 9 0.07
39 52 0.41
40 52 0.41
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:19065728 original size:40 final size:40
Alignment explanation
Indices: 19065532--19065714 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
19065522 CGAATGATGT
* * * *
19065532 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
19065572 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
19065612 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
19065650 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19065690 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19065715 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 8 0.06
39 52 0.42
40 56 0.45
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19065747 original size:79 final size:78
Alignment explanation
Indices: 19065583--19065747 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 78
19065573 CGGACTAAGA
* **
19065583 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
* *
19065648 AATCGGGTTAAGT
66 AATCCGGTTAAAT
* * *
19065661 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
*
19065724 CTATATCCGGTTAAAT
63 CTAAATCCGGTTAAAT
19065740 TCCGAAGG
1 TCCGAAGG
19065748 TACGTGATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 2 0.03
78 34 0.46
79 38 0.51
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAAT
Found at i:19072203 original size:56 final size:56
Alignment explanation
Indices: 19072117--19072292 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
19072107 ACAAGGGATG
*
19072117 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
19072173 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
19072229 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
19072285 ATGGGCAA
1 ATGGGCAA
19072293 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:19073630 original size:80 final size:79
Alignment explanation
Indices: 19073456--19073676 Score: 261
Period size: 79 Copynumber: 2.8 Consensus size: 79
19073446 AAGTGACCAT
* * * *
19073456 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGTAT
19073519 TGGTGCGAGTTACTAA
64 TGGTGCGAGTTACTAA
*
19073535 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGTATT
*
19073600 TGTGCGAGTTACTATA
65 GGTGCGAGTTACTA-A
* ** * * *
19073616 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAGGTA
19073677 CGTGATTTGG
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 63 0.51
80 58 0.47
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGTATTG
GTGCGAGTTACTAA
Found at i:19073655 original size:40 final size:40
Alignment explanation
Indices: 19073421--19073641 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
19073411 AATGATGTCC
* * * *
19073421 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
19073461 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
19073501 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
19073540 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
19073580 GGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
19073620 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
19073642 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:19078716 original size:137 final size:138
Alignment explanation
Indices: 19078553--19078800 Score: 372
Period size: 137 Copynumber: 1.8 Consensus size: 138
19078543 ATGTGCAACG
* * *
19078553 ATTAATTGTATATATTTTACCAAATTTATTAATATAAACAATTATATTATTTAATTTCGGTCA-A
1 ATTAATTGTATATATTTTACCAAATTTATTAATATAAAAAATTATATTAGTTAATTTCGATCAGA
* *
19078617 ATATAAAAGACATGGAAATTAATATTCTTTTACAAAGAAAATAATTAATATATGAATTTGATTTA
66 ATATAAAAGACATGAAAACTAATATTCTTTTACAAAGAAAATAATTAATATATGAATTTGATTTA
19078682 TACAAAAT
131 TACAAAAT
* * *
19078690 ATTAATTTTATATATTTTACCGAATTTGTTAATATAAAAAATTATATTAGTTAATTTCGATCAGA
1 ATTAATTGTATATATTTTACCAAATTTATTAATATAAAAAATTATATTAGTTAATTTCGATCAGA
* * ** *
19078755 ATATAAAATACATGAAAACTAATTTTCTTTTGGAAAGAATATAATT
66 ATATAAAAGACATGAAAACTAATATTCTTTTACAAAGAAAATAATT
19078801 TCTTTTTCTA
Statistics
Matches: 97, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
137 57 0.59
138 40 0.41
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (138 bp):
ATTAATTGTATATATTTTACCAAATTTATTAATATAAAAAATTATATTAGTTAATTTCGATCAGA
ATATAAAAGACATGAAAACTAATATTCTTTTACAAAGAAAATAATTAATATATGAATTTGATTTA
TACAAAAT
Found at i:19099801 original size:27 final size:27
Alignment explanation
Indices: 19099488--19099788 Score: 352
Period size: 27 Copynumber: 11.2 Consensus size: 27
19099478 AGAGGTCAAT
* *
19099488 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
19099515 AATTGACCGAAATGCTCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
19099542 AAATGACAAAAATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
19099568 AAATAACCTAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
19099595 AAATGACTAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
19099622 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * **
19099649 AAATAACCGAAATACCCTCACAATGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
19099676 AAATAATTGAAATACCCCCACAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
19099703 AAATGACCGAAATATCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
19099730 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
19099757 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
19099784 AAATG
1 AAATG
19099789 GCTATTATAC
Statistics
Matches: 229, Mismatches: 44, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.09
27 208 0.91
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:19108799 original size:15 final size:16
Alignment explanation
Indices: 19108761--19108802 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
19108751 TTTAAAAATC
*
19108761 AAATTAAAATATTAAT
1 AAATTAATATATTAAT
*
19108777 AAACTAATAT-TTAAT
1 AAATTAATATATTAAT
*
19108792 TAATTAATATA
1 AAATTAATATA
19108803 AAATATCTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAATATATTAAT
Found at i:19109696 original size:50 final size:50
Alignment explanation
Indices: 19109620--19109777 Score: 271
Period size: 50 Copynumber: 3.2 Consensus size: 50
19109610 AACACATAGA
*
19109620 ACCTCTCATCTCGGTGCCAACACCATGTCCCAGACATGGTTTTACATGGG
1 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
* *
19109670 ACCTCTTATCTCAGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
1 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
* *
19109720 ACCTCTCATCTCGGTGCCAACGCCATGTCCCGGACATGGTCTTACATGGG
1 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
19109770 ACCTCTCA
1 ACCTCTCA
19109778 AAATCTCAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 101 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (50 bp):
ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
Found at i:19111770 original size:86 final size:86
Alignment explanation
Indices: 19111670--19111842 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
19111660 ACAAAATTTA
19111670 TTATATCTCATGATTTACAGTTCCATTACTTACTCCGTTTCTTCTATGAGAAACTAGACTCAATA
1 TTATATCTCATGATTTACAGTTCCATTACTTACTCCGTTTCTTCTATGAGAAACTAGACTCAATA
19111735 AAATTTATTTACATATCTTAT
66 AAATTTATTTACATATCTTAT
19111756 TTATATCTCATGATTTACAGTTCCATTACTTACTCCGTTTCTTCTATGAGAAACTAGACTCAATA
1 TTATATCTCATGATTTACAGTTCCATTACTTACTCCGTTTCTTCTATGAGAAACTAGACTCAATA
19111821 AAATTTATTTACATATCTTAT
66 AAATTTATTTACATATCTTAT
19111842 T
1 T
19111843 CATACTCTAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.43
Consensus pattern (86 bp):
TTATATCTCATGATTTACAGTTCCATTACTTACTCCGTTTCTTCTATGAGAAACTAGACTCAATA
AAATTTATTTACATATCTTAT
Found at i:19112734 original size:30 final size:31
Alignment explanation
Indices: 19112683--19112750 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
19112673 ACCCTTAAAA
** * **
19112683 TATTTACACTATTGGTCCTTCAACTTTTTCG
1 TATTTACACTATTAATCCTTCAAATTTTGAG
19112714 TATTTACACT-TTAATCCTTCAAATTTTGAG
1 TATTTACACTATTAATCCTTCAAATTTTGAG
19112744 TATTTAC
1 TATTTAC
19112751 TCTTGGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCTTCAAATTTTGAG
Found at i:19123882 original size:43 final size:43
Alignment explanation
Indices: 19123829--19123911 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
19123819 TACTAAGCTT
* * *
19123829 ATGACCTTTAGCGGCGGGTTTCCTACAAACGCCACTAAAGAAC
1 ATGACCTTTAGCAGCGCGTTTCCCACAAACGCCACTAAAGAAC
* * *
19123872 ATGACTTTTAGCAGCGCGTTTCCCACAAATGCCGCTAAAG
1 ATGACCTTTAGCAGCGCGTTTCCCACAAACGCCACTAAAG
19123912 GTCATGTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGACCTTTAGCAGCGCGTTTCCCACAAACGCCACTAAAGAAC
Found at i:19130894 original size:100 final size:100
Alignment explanation
Indices: 19130764--19130955 Score: 287
Period size: 100 Copynumber: 1.9 Consensus size: 100
19130754 TTTTTTGTAC
* * ** *
19130764 TGCCAACGCCATATCCCATATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAATGCCATGTC
19130829 CCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
66 CCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
* * * *
19130864 TGCCAACGCCATGTCCTAGACATGGTCTTACATGAGACCTCTTATCTCGGTGCCAATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAATGCCATGTC
19130929 CCAGACATGGTCTTACATGGGACCTCT
66 CCAGACATGGTCTTACATGGGACCTCT
19130956 TTACCCAAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.01
100 81 0.99
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19130956 original size:50 final size:50
Alignment explanation
Indices: 19130764--19130955 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
19130754 TTTTTTGTAC
* * * ** *
19130764 TGCCAACGCCATATCCCATATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
19130814 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGAGACCTCTCATCTCGG
* *
19130864 TGCCAACGCCATGTCCTAGACATGGTCTTACATGAGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* *
19130914 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
19130956 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 121 0.98
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:19136104 original size:13 final size:13
Alignment explanation
Indices: 19136086--19136115 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19136076 TGATTATCAT
19136086 CTTTAAATATTAA
1 CTTTAAATATTAA
*
19136099 CTTTAAATATTGA
1 CTTTAAATATTAA
19136112 CTTT
1 CTTT
19136116 TTTAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (13 bp):
CTTTAAATATTAA
Found at i:19136391 original size:87 final size:90
Alignment explanation
Indices: 19136265--19136428 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 90
19136255 ATGAAAGGAT
* * *
19136265 AAATAAATTTTAAATATATAGATAAACAATATTTGTCTTTATGATAATTAAAT-ATATTTATTTT
1 AAATAAATTTTAAATATATAGATAAACAATATTTGTCTTTA-AAAAATTAAATGATATTTATTTA
19136329 TATAAT-AATATTTTGAAAGATATTA
65 TATAATAAATATTTTGAAAGATATTA
* * *
19136354 AAAT-AATTTTAACAT-TA-AGATAAATATTATTTTTCTTTAAAAAATTAAATGATATTTATTTA
1 AAATAAATTTTAA-ATATATAGATAAACAATATTTGTCTTTAAAAAATTAAATGATATTTATTTA
*
19136416 TATGATAAATATT
65 TATAATAAATATT
19136429 ATATTATGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
86 9 0.14
87 34 0.52
88 16 0.25
89 6 0.09
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (90 bp):
AAATAAATTTTAAATATATAGATAAACAATATTTGTCTTTAAAAAATTAAATGATATTTATTTAT
ATAATAAATATTTTGAAAGATATTA
Found at i:19137086 original size:72 final size:71
Alignment explanation
Indices: 19136937--19137240 Score: 295
Period size: 72 Copynumber: 4.2 Consensus size: 71
19136927 CATATTACCG
* ** * * * * * *
19136937 AATAAACGATTTTACTTAATATCAAAACTCAATAAATCAAATTAATTTA-ATCTTCTCAAAACAT
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTACCT-TTTTAAAAACAC
**
19137001 ATAACTCG
65 ATAA-TTA
* * * *
19137009 AATAAATGGTTTTACTTAATATCAAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAATAC
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTA-CCTTTTTAAAAACAC
*
19137074 ATAATTG
65 ATAATTA
* * * ** *
19137081 GATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAAATTTTTAAACACACA
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTACCTTTTTAAAAACACA
19137146 TAATTA
66 TAATTA
* ** * * *
19137152 AATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAACCTTTTTAAAAACAC
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATT-ACCTTTTTAAAAACAC
19137217 ATAATTA
65 ATAATTA
**
19137224 AATAAACGACTTTACTT
1 AATAAACGGTTTTACTT
19137241 GATAATTAAT
Statistics
Matches: 189, Mismatches: 40, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
71 56 0.30
72 120 0.63
73 12 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (71 bp):
AATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTACCTTTTTAAAAACACA
TAATTA
Found at i:19137240 original size:143 final size:144
Alignment explanation
Indices: 19136937--19137240 Score: 337
Period size: 143 Copynumber: 2.1 Consensus size: 144
19136927 CATATTACCG
* * * *
19136937 AATAAACGATTTTACTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACATA
1 AATAAACGACTTTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTCAAAACACA
* * * * * * *
19137002 TAACTCGAATAAATGGTTTTACTTAATATCAAAACTCAATGAATTGAACTAAAATAGCCTTTTTA
66 TAACTCAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTTTA
* *
19137067 AAAATACATAATTG
131 AAAACACATAATTA
* * * * * *
19137081 GATAAACG-GTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAAAT-TT-TTAAACAC
1 AATAAACGACTT-TACTTAATATCAAAACTCAATAAA-TCAAATAAATTAAATCTTCTCAAA-AC
* * * * *
19137143 ACATAA-TTAAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAACCTTT
63 ACATAACTCAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTT
19137207 TTAAAAACACATAATTA
128 TTAAAAACACATAATTA
19137224 AATAAACGACTTTACTT
1 AATAAACGACTTTACTT
19137241 GATAATTAAT
Statistics
Matches: 131, Mismatches: 25, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
143 79 0.60
144 41 0.31
145 11 0.08
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (144 bp):
AATAAACGACTTTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTCAAAACACA
TAACTCAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTTTA
AAAACACATAATTA
Found at i:19139349 original size:21 final size:23
Alignment explanation
Indices: 19139324--19139372 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
19139314 ATAACATAAT
*
19139324 AAAAATTAAT-GATA-TAACCCA
1 AAAAATTAATAAATATTAACCCA
19139345 AAAAA-TAATAAATATTAACCCA
1 AAAAATTAATAAATATTAACCCA
19139367 AAAAAT
1 AAAAAT
19139373 AGATGTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAATAAATATTAACCCA
Found at i:19139538 original size:25 final size:25
Alignment explanation
Indices: 19139509--19139606 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 25
19139499 GTTTCGGGGT
* *
19139509 AGAGGAGTGTCGACGATGATGTAGT
1 AGAGGAGTGTCGACGGTGATGTAGC
**
19139534 AGAGGAGTGTCGACGGTGATGGGGC
1 AGAGGAGTGTCGACGGTGATGTAGC
* *
19139559 AGAGGAGTGTTGACGGCGATGTAGC
1 AGAGGAGTGTCGACGGTGATGTAGC
*
19139584 AGAGGTGATAGTCGACGGTGATG
1 AGAGGAG-T-GTCGACGGTGATG
19139607 AAATAATTGG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 48 0.80
26 1 0.02
27 11 0.18
ACGTcount: A:0.24, C:0.10, G:0.45, T:0.20
Consensus pattern (25 bp):
AGAGGAGTGTCGACGGTGATGTAGC
Found at i:19139588 original size:50 final size:52
Alignment explanation
Indices: 19139504--19139606 Score: 138
Period size: 50 Copynumber: 2.0 Consensus size: 52
19139494 TTGTTGTTTC
* * *
19139504 GGGGTAGAGGAGTGTCGACGATGATGTAGTAGAGGAG-T-GTCGACGGTGAT
1 GGGGCAGAGGAGTGTCGACGACGATGTAGCAGAGGAGATAGTCGACGGTGAT
* * *
19139554 GGGGCAGAGGAGTGTTGACGGCGATGTAGCAGAGGTGATAGTCGACGGTGAT
1 GGGGCAGAGGAGTGTCGACGACGATGTAGCAGAGGAGATAGTCGACGGTGAT
19139606 G
1 G
19139607 AAATAATTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 31 0.69
51 1 0.02
52 13 0.29
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (52 bp):
GGGGCAGAGGAGTGTCGACGACGATGTAGCAGAGGAGATAGTCGACGGTGAT
Found at i:19139697 original size:35 final size:34
Alignment explanation
Indices: 19139619--19139708 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
19139609 ATAATTGGTT
** *
19139619 GGGG-AAAATCTAAGGGATTTGGGGAGTTTTGATTT
1 GGGGAAAAAT-TAAGGGATTTGGGGAAATTT-ATTA
19139654 GGGGAAAAATTAAGGGATTTGGGGAAAATTT-TTA
1 GGGGAAAAATTAAGGGATTTGGGG-AAATTTATTA
*
19139688 GGGGAAAAAAATAAGGGATTT
1 GGGG-AAAAATTAAGGGATTT
19139709 CGAGGATATG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
34 6 0.12
35 33 0.69
36 9 0.19
ACGTcount: A:0.36, C:0.01, G:0.34, T:0.29
Consensus pattern (34 bp):
GGGGAAAAATTAAGGGATTTGGGGAAATTTATTA
Found at i:19139727 original size:35 final size:35
Alignment explanation
Indices: 19139648--19139737 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 35
19139638 TGGGGAGTTT
* *
19139648 TGATTTGGGG-AAAAATTAAGGGATTTGGGGAAAA
1 TGATTTGGGGAAAAAAATAAGGGATTTGAGGAAAA
* *
19139682 T-TTTTAGGGGAAAAAAATAAGGGATTTCGAGG-ATA
1 TGATTT-GGGGAAAAAAATAAGGGATTT-GAGGAAAA
* *
19139717 TGATTTGGGGATAAAACTAAG
1 TGATTTGGGGAAAAAAATAAG
19139738 CAGAGCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
33 3 0.07
34 5 0.11
35 31 0.69
36 6 0.13
ACGTcount: A:0.39, C:0.02, G:0.31, T:0.28
Consensus pattern (35 bp):
TGATTTGGGGAAAAAAATAAGGGATTTGAGGAAAA
Found at i:19139850 original size:40 final size:41
Alignment explanation
Indices: 19139779--19139873 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
19139769 AAAATGATAC
* * *
19139779 TTTGTGGCATTTTTCTCATAAACGCCGCTATTGGTT-ACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCACTATTGCTTGACCT
* *
19139819 TTTGCGGCGTTTTTCTCATAAATGCCACTATTGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCACTATTGCTTGACCT
*
19139860 TTTGTGGTGTTTTT
1 TTTGTGGCGTTTTT
19139874 TCGTTAGCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 31 0.66
41 16 0.34
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (41 bp):
TTTGTGGCGTTTTTCTCATAAACGCCACTATTGCTTGACCT
Found at i:19141146 original size:28 final size:30
Alignment explanation
Indices: 19141113--19141177 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
19141103 TGAATAAAAA
* *
19141113 TAATTTTATG-AGC-CTGGGGGCAAAATTG
1 TAATTTTATGAAACTCTGGGGGCAAAAATG
* *
19141141 TAATTTTGTGAAACTTTGGGGGCAAAAATG
1 TAATTTTATGAAACTCTGGGGGCAAAAATG
19141171 TAATTTT
1 TAATTTT
19141178 TTCCAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 9 0.29
29 2 0.06
30 20 0.65
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (30 bp):
TAATTTTATGAAACTCTGGGGGCAAAAATG
Found at i:19141516 original size:42 final size:42
Alignment explanation
Indices: 19141469--19141659 Score: 147
Period size: 41 Copynumber: 4.6 Consensus size: 42
19141459 CTTTGAATGT
*
19141469 AAAGGGGTTGCTAAGTGTAGATTCCCTGAATCATTGATCAAA
1 AAAGGGGTTGCTAAGTGCAGATTCCCTGAATCATTGATCAAA
* * *
19141511 AAA-GGGTTGCTAAGTGCAGATTCCCTGAATTATTGATTAAT
1 AAAGGGGTTGCTAAGTGCAGATTCCCTGAATCATTGATCAAA
* * * * * * * ****
19141552 AATGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGTG
1 AAAGGGGTTGCTAAGTGCAGATTCC-CTGAATCATTGATCAAA
* * * *
19141595 AAAGGGGTTGCTATGTGCTGATTCCCCG-ATCATTGAT--TA
1 AAAGGGGTTGCTAAGTGCAGATTCCCTGAATCATTGATCAAA
* *
19141634 TAAGGTGGTTGCTAAGTGCTGATTCC
1 AAAGG-GGTTGCTAAGTGCAGATTCC
19141660 ACCGGGATCC
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 5 0.04
40 19 0.15
41 44 0.36
42 24 0.20
43 31 0.25
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
AAAGGGGTTGCTAAGTGCAGATTCCCTGAATCATTGATCAAA
Found at i:19141690 original size:44 final size:42
Alignment explanation
Indices: 19141515--19141707 Score: 178
Period size: 44 Copynumber: 4.6 Consensus size: 42
19141505 ATCAAAAAAG
* * * ** * *
19141515 GGTTGCTAAGTGCAGATTCC-CTGAATTATTGATTAATAATGT
1 GGTTGCTAAGTGCTGATTCCACCGGATCCTTGATT-ATGAGGT
* * *
19141557 GGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGGATCCTTGATTATG--AGGT
* * *
19141600 GGTTGCTATGTGCTGATTCC-CC-GATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGGATCCTTGATTATGAGGT
**
19141640 GGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACC-GGATCC-TTGATTATGAGGT
19141684 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
19141708 TGTGACGGTT
Statistics
Matches: 123, Mismatches: 20, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
39 3 0.02
40 19 0.15
41 12 0.10
42 21 0.17
43 33 0.27
44 35 0.28
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGGATCCTTGATTATGAGGT
Found at i:19141697 original size:84 final size:84
Alignment explanation
Indices: 19141514--19141703 Score: 233
Period size: 84 Copynumber: 2.2 Consensus size: 84
19141504 GATCAAAAAA
* * * *
19141514 GGGTTGCTAAGTGCAGATTCCCTGAATTATTGATTAATAATGTGGTTGCTAAGTACTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
* ***
19141579 CGTATCCTTGATTGTGAAAG
66 CGGATCCTTGAACATG-AAG
* *
19141599 GGGTTGCTATGTGCTGATTCCCCG-ATCATTGATT-ATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
19141662 CGGGATCCTTTGAACATG-AG
66 C-GGATCC-TTGAACATGAAG
19141682 GTGGTTGCTAAGTGCTGATTCC
1 G-GGTTGCTAAGTGCTGATTCC
19141704 ACCGTGTGAC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
83 31 0.34
84 33 0.36
85 27 0.30
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (84 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
CGGATCCTTGAACATGAAG
Found at i:19151347 original size:26 final size:26
Alignment explanation
Indices: 19151308--19151362 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
19151298 AAGCTCTCTT
*
19151308 GAAAATTGGAAGAATGGA-AATGAGA
1 GAAAATAGGAAGAATGGAGAATGAGA
19151333 GAAAATAGAGAAGAATGGATGAATGAGA
1 GAAAATAG-GAAGAATGGA-GAATGAGA
19151361 GA
1 GA
19151363 TGATGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.15
Consensus pattern (26 bp):
GAAAATAGGAAGAATGGAGAATGAGA
Found at i:19152510 original size:22 final size:22
Alignment explanation
Indices: 19152485--19152536 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
19152475 GGACATGCCA
19152485 CCACTGATTTATAGATAAACTG
1 CCACTGATTTATAGATAAACTG
*
19152507 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTATAGATAAACTG
19152529 CCACTGAT
1 CCACTGAT
19152537 AACACTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (22 bp):
CCACTGATTTATAGATAAACTG
Found at i:19153754 original size:12 final size:12
Alignment explanation
Indices: 19153712--19153754 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
19153702 TAAGGGGAGG
19153712 AGAAGAAAGAAGT
1 AGAAGAAA-AAGT
* *
19153725 AGGAGAAAAAAT
1 AGAAGAAAAAGT
*
19153737 ATAAGAAAAAGT
1 AGAAGAAAAAGT
19153749 AGAAGA
1 AGAAGA
19153755 GGAAGTGGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (12 bp):
AGAAGAAAAAGT
Found at i:19160889 original size:40 final size:40
Alignment explanation
Indices: 19160829--19161011 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
19160819 TACTGGAGAT
* * *
19160829 AAACA-GGGCACGGAAGTGCATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* * * *
19160868 AAATAGGGGCACGTATGTGCATTTAGGGGTACTGCAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* * *
19160908 AAACAAGGGCACATATGTGCATTAAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
*
19160948 AAACAGGGGCACGCATGTGCATTCAGGGGTACCGAAGTA-
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* *
19160987 AAATAGGGGCACGAATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
19161012 TTCTATAATT
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 27 0.22
40 97 0.78
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
Found at i:19167566 original size:104 final size:104
Alignment explanation
Indices: 19167384--19167593 Score: 402
Period size: 104 Copynumber: 2.0 Consensus size: 104
19167374 GAGCTATTAA
19167384 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
1 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
*
19167449 GGTACTGATAATCATTATTTGCTATCCTTTCCAGAATTT
66 GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
*
19167488 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
1 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
19167553 GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
66 GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
19167592 CG
1 CG
19167594 TATGCTTCAT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (104 bp):
CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
Found at i:19170021 original size:20 final size:20
Alignment explanation
Indices: 19169998--19170083 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 20
19169988 ACAAGCCACC
*
19169998 AGTAATGCAGACAAGCTGCT
1 AGTAATGCAGACAAGCTGCA
** * ** *
19170018 AGTAATGTGGTCAAGCCACT
1 AGTAATGCAGACAAGCTGCA
* * * *
19170038 AGTAATGTATATAAACTGCA
1 AGTAATGCAGACAAGCTGCA
* *
19170058 AGTAGTGCAAACAAGCTGCA
1 AGTAATGCAGACAAGCTGCA
19170078 AGTAAT
1 AGTAAT
19170084 ATGGAGAAGC
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (20 bp):
AGTAATGCAGACAAGCTGCA
Found at i:19170112 original size:60 final size:60
Alignment explanation
Indices: 19169998--19170116 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
19169988 ACAAGCCACC
* * * * * * *
19169998 AGTAATGCAGACAAGCTGCTAGTAATGTGGTCAAGCCACTAGTAATGTATATAAACTGCA
1 AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACCAGTAATGCAAATAAACTGCA
* * *
19170058 AGTAGTGCAAACAAGCTGCAAGTAATATGGAGAAGCCACCAGTGATGCAAATAAACTGC
1 AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACCAGTAATGCAAATAAACTGC
19170117 CAATACTTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (60 bp):
AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACCAGTAATGCAAATAAACTGCA
Found at i:19172147 original size:51 final size:49
Alignment explanation
Indices: 19171965--19172309 Score: 339
Period size: 51 Copynumber: 6.8 Consensus size: 49
19171955 AGTTTTATCA
* ** *
19171965 TTCGTTACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
* * * * *
19172014 TTACGATTCATGTAGTAGCCTTCACATAGTACTATACACATGATCAAATT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
* *
19172064 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA--TT
* * * * ** *
19172116 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATT
* * * **
19172166 CATCGATACACGTAGTAGCCTTCACACAGTACTACACACGTTACCAAAAC
1 -TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
* * * * *
19172216 TTCTATGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATT
1 TTCGA--TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATT
*
19172268 TATCGATACACGTAGTAGCCTTCACAGAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
19172310 TTCATCGATA
Statistics
Matches: 241, Mismatches: 46, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
49 5 0.02
50 86 0.36
51 140 0.58
52 7 0.03
53 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (49 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
Found at i:19172206 original size:102 final size:101
Alignment explanation
Indices: 19171970--19172309 Score: 407
Period size: 102 Copynumber: 3.4 Consensus size: 101
19171960 TATCATTCGT
** * * **
19171970 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-TGAAG-TTTTACGATTCATGTAGTAGC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGTAGC
* * ** * *
19172033 CTTCACATAGTACTATACACATGATCA-AATTTTACGG
65 CTTCACTTAGTACTACACATGTGATCATAATTAT-CGA
*
19172070 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
* *
19172135 TTCACTTAGTACTACACATGTGTTCATCATTCATCGA
66 TTCACTTAGTACTACACATGTGATCATAATT-ATCGA
* * * * **
19172172 TACACGTAGTAGCCTTCACACAGTACTACACACGTTACCAAAACTTCTATGTACACATAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
* *
19172237 TTCACTTAGTACTACACATGTGACCATTATTTATCGA
66 TTCACTTAGTACTACACATGTGATCA-TAATTATCGA
*
19172274 TACACGTAGTAGCCTTCACAGAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
19172310 TTCATCGATA
Statistics
Matches: 207, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
100 36 0.17
101 37 0.18
102 130 0.63
103 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (101 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
TTCACTTAGTACTACACATGTGATCATAATTATCGA
Found at i:19172260 original size:153 final size:150
Alignment explanation
Indices: 19171965--19172315 Score: 400
Period size: 153 Copynumber: 2.3 Consensus size: 150
19171955 AGTTTTATCA
* * * *** * * *
19171965 TTCGTTACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCATGTAGT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATCATTCACGATACACGTAGT
* * * * * *
19172030 AGCCTTCACATAGTACTATACACATGATCAAATTTTACGGTTCACGTAGTAGCCTTCACATAGTA
66 AGCCTTCACACAGTACTACACACATGACCAAATTCTACGGTACACATAGTAGCCTTCACATAGTA
19172095 CTACACACGTGACCA-AAGCTT
131 CTACACACGTGACCATAA--TT
* * * *
19172116 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTCATCGATACACGTAG
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATCATTCA-CGATACACGTAG
* * * *
19172181 TAGCCTTCACACAGTACTACACACGTTACCAAAACTTCTA-TGTACACATAGTAGCCTTCACTTA
65 TAGCCTTCACACAGTACTACACACATGACC-AAA-TTCTACGGTACACATAGTAGCCTTCACATA
* *
19172245 GTACTACACATGTGACCATTATT
128 GTACTACACACGTGACCATAATT
*
19172268 TATCGATACACGTAGTAGCCTTCACAGAGTACTACACACGTGTTCATC
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATC
19172316 GATACCTTAT
Statistics
Matches: 166, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
151 42 0.25
152 38 0.23
153 81 0.49
154 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (150 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATCATTCACGATACACGTAGT
AGCCTTCACACAGTACTACACACATGACCAAATTCTACGGTACACATAGTAGCCTTCACATAGTA
CTACACACGTGACCATAATT
Found at i:19172816 original size:30 final size:30
Alignment explanation
Indices: 19172782--19172843 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
19172772 TCGACTCAAC
19172782 CTTTTACAAAATTACGA-TTTTGTCCCCAAA
1 CTTTTACAAAATTAC-ATTTTTGTCCCCAAA
* * *
19172812 CTTTTGCATATTTACATTTTTGTCCCCAAA
1 CTTTTACAAAATTACATTTTTGTCCCCAAA
19172842 CT
1 CT
19172844 CAAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (30 bp):
CTTTTACAAAATTACATTTTTGTCCCCAAA
Found at i:19174434 original size:20 final size:20
Alignment explanation
Indices: 19174406--19174462 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
19174396 AAGACGATGA
19174406 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
19174426 ACGATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
19174446 TCCATTCCAATTACTTA
1 ACCATTCCATTTACTTA
19174463 GCATAAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:19179095 original size:40 final size:40
Alignment explanation
Indices: 19179011--19179154 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
19179001 TTGAATGCTG
* *
19179011 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
19179050 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
** * *
19179091 TCCGGGTTAAGTCCCGAAGGCCTTTGTGTGAGATACTAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
**
19179131 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
19179155 GAATGAGTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 73 0.85
41 12 0.14
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19185830 original size:13 final size:13
Alignment explanation
Indices: 19185812--19185836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19185802 CCGAAACTAG
19185812 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
19185825 AAAGAAAAAAAA
1 AAAGAAAAAAAA
19185837 AATGCTCATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:19186947 original size:39 final size:38
Alignment explanation
Indices: 19186843--19186972 Score: 106
Period size: 39 Copynumber: 3.3 Consensus size: 38
19186833 TTGAATGCTG
*
19186843 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTA-AGTGACTATA
1 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTA-A
* * * *
19186882 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAA
1 TCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
* *
19186921 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAA
1 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGATACTAA
19186960 TCCGGGTAAGTCC
1 TCCGGGTAAGTCC
19186973 AACCGAAGCG
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
38 8 0.11
39 45 0.62
40 11 0.15
41 9 0.12
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (38 bp):
TCCGGGTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:19190217 original size:27 final size:27
Alignment explanation
Indices: 19190177--19190472 Score: 273
Period size: 27 Copynumber: 11.0 Consensus size: 27
19190167 TATGGGCTAC
*
19190177 TGACTGAAA-ACCCTCGAAAGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
*
19190203 TGACTAAAATACCCTCGAAGGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
* * *
19190230 TGACCGAACTACCCTC-AAAGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
** *
19190256 TGACCAAAATACCCCCGAAGGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
* ** *
19190283 TGAGTGAAATACGGTCGAAGGGTAATA
1 TGACTGAAATACCCTCGAAGGGTAAAA
19190310 TGA-TCGAAATACCCTCGAAGGGTAAAA
1 TGACT-GAAATACCCTCGAAGGGTAAAA
* * **
19190337 TGACTAAAATACCCTCAAAGCATAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
*
19190364 TGACTAAAATACCC-CTGAAGGGTAAAA
1 TGACTGAAATACCCTC-GAAGGGTAAAA
** *
19190391 TGACCAAAATACCC-CTAAAGGGTAAAA
1 TGACTGAAATACCCTC-GAAGGGTAAAA
* * *
19190418 T-AATCGAAATACCCTCGATGGATAAAA
1 TGACT-GAAATACCCTCGAAGGGTAAAA
* *
19190445 TGACCGAAATACCC-CCATAGGGTAAAA
1 TGACTGAAATACCCTCGA-AGGGTAAAA
19190472 T
1 T
19190473 ATCTGTTATA
Statistics
Matches: 221, Mismatches: 40, Indels: 17
0.79 0.14 0.06
Matches are distributed among these distances:
26 35 0.16
27 183 0.83
28 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
TGACTGAAATACCCTCGAAGGGTAAAA
Found at i:19195167 original size:27 final size:27
Alignment explanation
Indices: 19195109--19195555 Score: 463
Period size: 27 Copynumber: 16.6 Consensus size: 27
19195099 GTTGAGGAAA
* * *
19195109 TCGAAGGCT-AAATGATCGAAATATCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* * * **
19195135 ACGAAGGATAAAATAACTAAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
19195162 TTGAAGGGTAAAATGATCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
*
19195189 CCGAAGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* * * **
19195216 CCAAAAGGTAAAATGACTAAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
19195243 TCGAAGGGTAAAATGACCAAAATACCT
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
19195270 TCGATGGGTAAAATGACCGAAATACCT
1 TCGAAGGGTAAAATGACCGAAATACCC
19195297 TCGAAGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
*
19195324 TCGAATGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
19195351 TCGAATGGTAAAATGACTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
19195378 CCGAAAGGTAAAATGACC-ACAATACCC
1 TCGAAGGGTAAAATGACCGA-AATACCC
* *
19195405 CCGAAGGGTAAAATGACTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* * * *
19195432 TCGAAAGGAAAAAT-AACTAGAATACCC
1 TCGAAGGGTAAAATGACCGA-AATACCC
* * * *
19195459 TCGAATGATATAATAACCGAAATA-CC
1 TCGAAGGGTAAAATGACCGAAATACCC
* **
19195485 TCGAATGGTAAAATGATTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
19195512 CCGAAGGGTAAAATGATCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
*
19195539 -CCATAGGGTAAAATGAC
1 TCGA-AGGGTAAAATGAC
19195556 TGTTATACCC
Statistics
Matches: 355, Mismatches: 59, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
26 33 0.09
27 318 0.90
28 4 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
TCGAAGGGTAAAATGACCGAAATACCC
Found at i:19195769 original size:26 final size:26
Alignment explanation
Indices: 19195737--19195807 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
19195727 ACATATACTG
** *
19195737 TTACTGGCAGCTTTGCTGTGTTATTA
1 TTACTGGCAGCTTTGCTGCATCATTA
*
19195763 TTACTGGCAGCTTTGCCGCATCATTA
1 TTACTGGCAGCTTTGCTGCATCATTA
*
19195789 TCACTGGCAGCTTTGCTGC
1 TTACTGGCAGCTTTGCTGC
19195808 GATATTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCATTA
Found at i:19197063 original size:18 final size:18
Alignment explanation
Indices: 19197042--19197082 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
19197032 TGATTTTTTT
19197042 AAAAAAATAGAATTTTCA
1 AAAAAAATAGAATTTTCA
** *
19197060 AAAATTATAGAATTTTTA
1 AAAAAAATAGAATTTTCA
19197078 AAAAA
1 AAAAA
19197083 CTTGCAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAAAATAGAATTTTCA
Found at i:19197516 original size:27 final size:27
Alignment explanation
Indices: 19197454--19197540 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
19197444 AATTTTTAAA
*
19197454 ATTTAAAAGATTAAAAAAATTATATATT
1 ATTTAAAA-ATTAAAAAAATTATAAATT
*
19197482 -TTTAAAAAATTAAAAATCATTA-AAATT
1 ATTT-AAAAATTAAAAA-AATTATAAATT
* * * *
19197509 ATTTAAAAACTATAAAAAGTAAAAATAT
1 ATTTAAAAATTAAAAAAATTATAAAT-T
19197537 ATTT
1 ATTT
19197541 TTTAATATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.06
27 29 0.60
28 16 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTTAAAAATTAAAAAAATTATAAATT
Found at i:19199579 original size:42 final size:42
Alignment explanation
Indices: 19199513--19199608 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
19199503 AAATGGTTTT
** *
19199513 ACAA-CTGTGTATCGGTGAAGCTCCCCACGTGAGCTTAAGTG
1 ACAAGCTGTGTATCAATGAAACTCCCCACGTGAGCTTAAGTG
**
19199554 ACAAGCTGTGTATCAATGAAACTCCCTGCGTGAGCTTAAGTG
1 ACAAGCTGTGTATCAATGAAACTCCCCACGTGAGCTTAAGTG
*
19199596 ACAAGTTGTGTAT
1 ACAAGCTGTGTAT
19199609 TAGCAATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (42 bp):
ACAAGCTGTGTATCAATGAAACTCCCCACGTGAGCTTAAGTG
Found at i:19220306 original size:32 final size:32
Alignment explanation
Indices: 19220229--19220404 Score: 123
Period size: 32 Copynumber: 5.5 Consensus size: 32
19220219 ATGTGATTGG
* ** * *
19220229 CACAAATCCATCAGTAGTAGTGATATGATTG-
1 CACAAAGCCATCAGTAACAGTAATATGATCGA
19220260 CACACAA-CCATCAGTAACAGTAACT-TGATCGA
1 CACA-AAGCCATCAGTAACAGTAA-TATGATCGA
* * * *
19220292 CACAAAGCCATCAGTAAAAGTGATAAGATCGG
1 CACAAAGCCATCAGTAACAGTAATATGATCGA
*
19220324 CACACAA-CCATCAATAACAGTGAA-ATGATC-A
1 CACA-AAGCCATCAGTAACAGT-AATATGATCGA
* * * *
19220355 GCAGACAGCCATC-GTTAACGGTAATATGATTGA
1 -CACAAAGCCATCAG-TAACAGTAATATGATCGA
19220388 CACAAAGCCATCAGTAA
1 CACAAAGCCATCAGTAA
19220405 TGGTACTATG
Statistics
Matches: 112, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
31 28 0.25
32 79 0.71
33 5 0.04
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTAATATGATCGA
Found at i:19220367 original size:64 final size:63
Alignment explanation
Indices: 19220229--19220353 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 63
19220219 ATGTGATTGG
* ** * * * *
19220229 CACAAATCCATCAGTAGTAGTGATATGATTGCACACAACCATCAGTAACAGTAACTTGATCGA
1 CACAAAGCCATCAGTAAAAGTGATAAGATGGCACACAACCATCAATAACAGTAACATGATCGA
19220292 CACAAAGCCATCAGTAAAAGTGATAAGATCGGCACACAACCATCAATAACAGTGAA-ATGATC
1 CACAAAGCCATCAGTAAAAGTGATAAGAT-GGCACACAACCATCAATAACAGT-AACATGATC
19220354 AGCAGACAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 25 0.47
64 26 0.49
65 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (63 bp):
CACAAAGCCATCAGTAAAAGTGATAAGATGGCACACAACCATCAATAACAGTAACATGATCGA
Found at i:19220415 original size:32 final size:32
Alignment explanation
Indices: 19220222--19220435 Score: 93
Period size: 32 Copynumber: 6.7 Consensus size: 32
19220212 TACAGAAATG
* * *** *
19220222 TGATTGGCACAAATCCATCAGTAGTAGTGATA
1 TGATTTGCACAAAGCCATCAGTAACGGTAATA
*
19220254 TGA-TTGCACACAA-CCATCAGTAACAGTAACT-
1 TGATTTGCACA-AAGCCATCAGTAACGGTAA-TA
* ** *
19220285 TGA-TCGACACAAAGCCATCAGTAAAAGTGATA
1 TGATTTG-CACAAAGCCATCAGTAACGGTAATA
* ** * *
19220317 AGATCGGCACACAA-CCATCAATAACAGTGAA-A
1 TGATTTGCACA-AAGCCATCAGTAACGGT-AATA
** * *
19220349 TGATCAGCAGACAGCCATC-GTTAACGGTAATA
1 TGATTTGCACAAAGCCATCAG-TAACGGTAATA
* *
19220381 TGA-TTGACACAAAGCCATCAGTAATGGTACTA
1 TGATTTG-CACAAAGCCATCAGTAACGGTAATA
* *
19220413 TGATTTGTACAAAGTCATCAGTA
1 TGATTTGCACAAAGCCATCAGTA
19220436 GCATCATAGC
Statistics
Matches: 141, Mismatches: 27, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
31 31 0.22
32 102 0.72
33 8 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (32 bp):
TGATTTGCACAAAGCCATCAGTAACGGTAATA
Found at i:19226091 original size:16 final size:18
Alignment explanation
Indices: 19226070--19226106 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19226060 CCCATTCATA
19226070 CATTTAG-GTA-AAATTG
1 CATTTAGAGTAGAAATTG
*
19226086 CATTTAGATTAGAAATTG
1 CATTTAGAGTAGAAATTG
19226104 CAT
1 CAT
19226107 AAGGATCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (18 bp):
CATTTAGAGTAGAAATTG
Found at i:19246061 original size:12 final size:12
Alignment explanation
Indices: 19246033--19246072 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19246023 ACTCGATTTC
*
19246033 TTTTCAAGCTCT
1 TTTTCAATCTCT
* *
19246045 CTTTCAATTTCT
1 TTTTCAATCTCT
19246057 TTTTCAATCTCT
1 TTTTCAATCTCT
19246069 TTTT
1 TTTT
19246073 GCTTTTCACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.60
Consensus pattern (12 bp):
TTTTCAATCTCT
Found at i:19246135 original size:33 final size:32
Alignment explanation
Indices: 19246098--19246190 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
19246088 TTGTTTTTGA
19246098 AATCTCATTTTCATCTTTTTCTTTTTCAATCTC
1 AATCTCATTTTCAT-TTTTTCTTTTTCAATCTC
** *
19246131 AATCTCAAATT-ATTTTTTCTTTTTCTCACTCTC
1 AATCTCATTTTCATTTTTTC-TTTT-TCAATCTC
* * *
19246164 ATTTTCATTTTCTTTTATTTCTTTTTC
1 AATCTCATTTTCATTT-TTTCTTTTTC
19246191 TTTTTCTCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 25 0.52
34 7 0.15
35 4 0.08
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (32 bp):
AATCTCATTTTCATTTTTTCTTTTTCAATCTC
Found at i:19246220 original size:22 final size:21
Alignment explanation
Indices: 19246144--19246226 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
19246134 CTCAAATTAT
* *
19246144 TTTTTCTTTTTCTCAC-TCTC
1 TTTTTCTTTTTCTCTCATTTC
* * * *
19246164 ATTTTCATTTTCTTTTATTTC
1 TTTTTCTTTTTCTCTCATTTC
19246185 TTTTTCTTTTTCTCTCATTTC
1 TTTTTCTTTTTCTCTCATTTC
*
19246206 TTTTT-TTCTTCTCTCAATTTC
1 TTTTTCTTTTTCTCTC-ATTTC
19246227 ATTCAAGATT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 20 0.40
21 30 0.60
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTCTTTTTCTCTCATTTC
Found at i:19247089 original size:12 final size:12
Alignment explanation
Indices: 19247072--19247102 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
19247062 AATTCCGAAA
19247072 CTTTTTTTTCTT
1 CTTTTTTTTCTT
19247084 CTTTTTTTTCTT
1 CTTTTTTTTCTT
19247096 -TTTTTTT
1 CTTTTTTT
19247103 CAATACTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:19247146 original size:19 final size:20
Alignment explanation
Indices: 19247109--19247148 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19247099 TTTTCAATAC
*
19247109 TGAATACTATATAAAAAAAT
1 TGAATACTAAATAAAAAAAT
*
19247129 TGAATAC-AAATAATAAAAT
1 TGAATACTAAATAAAAAAAT
19247148 T
1 T
19247149 TTTTTTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
TGAATACTAAATAAAAAAAT
Found at i:19247163 original size:14 final size:14
Alignment explanation
Indices: 19247144--19247181 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
19247134 ACAAATAATA
19247144 AAATTTTTTTTTTC
1 AAATTTTTTTTTTC
19247158 AAA-TTTTTTTTTC
1 AAATTTTTTTTTTC
*
19247171 GAATTTTTTTT
1 AAATTTTTTTT
19247182 ACAATCTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (14 bp):
AAATTTTTTTTTTC
Found at i:19250438 original size:29 final size:29
Alignment explanation
Indices: 19250406--19250463 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19250396 GTAATTCAGA
* *
19250406 TTAATGATTTTAATTATATTTAAAATGAT
1 TTAATGATTTAAATAATATTTAAAATGAT
* *
19250435 TTAATTATTTAAATAATATTTAAACTGAT
1 TTAATGATTTAAATAATATTTAAAATGAT
19250464 ATATTATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (29 bp):
TTAATGATTTAAATAATATTTAAAATGAT
Found at i:19250446 original size:28 final size:28
Alignment explanation
Indices: 19250412--19250472 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
19250402 CAGATTAATG
* * *
19250412 ATTTTAATTATATTTAAAATGATTTAATT
1 ATTTAAATAATATTTAAAATGATAT-ATT
*
19250441 ATTTAAATAATATTTAAACTGATATATT
1 ATTTAAATAATATTTAAAATGATATATT
19250469 ATTT
1 ATTT
19250473 CGATCCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
ATTTAAATAATATTTAAAATGATATATT
Found at i:19251325 original size:21 final size:20
Alignment explanation
Indices: 19251270--19251341 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 20
19251260 ATTTTTTTAA
**
19251270 AATAGTATGGTAAAA-AA-T
1 AATAGTATTTTAAAATAATT
*
19251288 AATAGTAATTT--AATAATT
1 AATAGTATTTTAAAATAATT
19251306 GAATAGT-TTTGTAAAATAATT
1 -AATAGTATTT-TAAAATAATT
19251327 AATAGTATTTTAAAA
1 AATAGTATTTTAAAA
19251342 CATAATTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 11 0.26
19 7 0.16
20 11 0.26
21 10 0.23
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
AATAGTATTTTAAAATAATT
Found at i:19251332 original size:20 final size:21
Alignment explanation
Indices: 19251299--19251341 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
19251289 ATAGTAATTT
19251299 AATAATTGAATAGT-TTTGTAA
1 AATAATTGAATAGTATTT-TAA
19251320 AATAATT-AATAGTATTTTAA
1 AATAATTGAATAGTATTTTAA
19251340 AA
1 AA
19251342 CATAATTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (21 bp):
AATAATTGAATAGTATTTTAA
Found at i:19252674 original size:35 final size:34
Alignment explanation
Indices: 19252571--19252695 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 34
19252561 AACTCGACTC
*
19252571 AAAAGATGTTAGGGTAGAACCGTCTAAGGA-AACCT
1 AAAAGATGTTAGGGTAG-ACTGTCTAA-GACAACCT
* * * *
19252606 AAAAAATGTTGGGGTAGACTCGTCCAAGGCAACCT
1 AAAAGATGTTAGGGTAGACT-GTCTAAGACAACCT
* *
19252641 AAAAGAGGTTAGGGTAGATCTGTTTAAGACAACCAT
1 AAAAGATGTTAGGGTAGA-CTGTCTAAGACAACC-T
19252677 AAAA-ATGTT-GGCGTAGACT
1 AAAAGATGTTAGG-GTAGACT
19252696 CACCTAAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
34 7 0.10
35 59 0.81
36 7 0.10
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (34 bp):
AAAAGATGTTAGGGTAGACTGTCTAAGACAACCT
Found at i:19253121 original size:18 final size:18
Alignment explanation
Indices: 19253090--19253125 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19253080 TGTTCTCTTT
* *
19253090 CTTTATTTTTTTATTATA
1 CTTTAATTTATTATTATA
19253108 CTTTAATTTATTATTATA
1 CTTTAATTTATTATTATA
19253126 ATATAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
CTTTAATTTATTATTATA
Found at i:19259816 original size:24 final size:25
Alignment explanation
Indices: 19259770--19259832 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
19259760 CCGAGGAGCC
* *
19259770 CACTCAAGTTGCTACTAAAGCAC-T
1 CACTCAACTTGCTACCAAAGCACAT
* *
19259794 CACTCAACTTGCTACCGAGGCACAT
1 CACTCAACTTGCTACCAAAGCACAT
19259819 -ACTCAAAC-TGCTAC
1 CACTC-AACTTGCTAC
19259833 TTAAGAGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (25 bp):
CACTCAACTTGCTACCAAAGCACAT
Found at i:19263196 original size:23 final size:23
Alignment explanation
Indices: 19263166--19263212 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
19263156 TGCAAAGCAG
19263166 AATAAAATATTAAATTTTTGCTA
1 AATAAAATATTAAATTTTTGCTA
19263189 AATAAAATATTAAATTTTTGCTA
1 AATAAAATATTAAATTTTTGCTA
19263212 A
1 A
19263213 GTCCTGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AATAAAATATTAAATTTTTGCTA
Found at i:19275253 original size:26 final size:26
Alignment explanation
Indices: 19275224--19275275 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19275214 ATATAATTTC
19275224 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
19275250 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
19275276 AATACCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:19275496 original size:50 final size:50
Alignment explanation
Indices: 19275417--19275544 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
19275407 GTACATGTGT
* *
19275417 GCTCATACGAGCTG--TAAATGGTAAGCTCCTCTAAGCTGAA-TA-ACGATAA
1 GCTCATACGAGCTGAATAAA-GGTAAGCTCCTCCAAGATGAATTATA-G-TAA
* **
19275466 GCTCGTACGAGCTGAATAGCGGTAAGCTCCTCCAAGATGAATTATAGTAA
1 GCTCATACGAGCTGAATAAAGGTAAGCTCCTCCAAGATGAATTATAGTAA
19275516 GCTCATACGAGCTGAATAAAGGTAAGCTC
1 GCTCATACGAGCTGAATAAAGGTAAGCTC
19275545 ATAAGACCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
49 13 0.19
50 48 0.72
51 5 0.07
52 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (50 bp):
GCTCATACGAGCTGAATAAAGGTAAGCTCCTCCAAGATGAATTATAGTAA
Found at i:19275531 original size:25 final size:24
Alignment explanation
Indices: 19275417--19275556 Score: 79
Period size: 25 Copynumber: 5.7 Consensus size: 24
19275407 GTACATGTGT
19275417 GCTCATACGAGCTG--TAAATGGTAA
1 GCTCATACGAGCTGAATAAA--GTAA
* * *
19275441 GCTCCT-CTAAGCTGAATAACGATAA
1 GCTCATAC-GAGCTGAATAAAG-TAA
* **
19275466 GCTCGTACGAGCTGAATAGCGGTAA
1 GCTCATACGAGCTGAATA-AAGTAA
* * * * *
19275491 GCTCCTCCAAGATGAATTATAGTAA
1 GCTCATACGAGCTGAA-TAAAGTAA
19275516 GCTCATACGAGCTGAATAAAGGTAA
1 GCTCATACGAGCTGAATAAA-GTAA
* *
19275541 GCTCATAAGACCTGAA
1 GCTCATACGAGCTGAA
19275557 ATCAGTAACC
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 14 0.16
25 66 0.75
26 7 0.08
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTGAATAAAGTAA
Found at i:19278711 original size:40 final size:40
Alignment explanation
Indices: 19278652--19278737 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
19278642 TTTTCGTGTT
*
19278652 TCCACACCCCCAAAATTATTTCATTACTCGTCCTGAGTAA
1 TCCACACCCCCAAAATTATTTCATTACTCATCCTGAGTAA
* * * *
19278692 TCCACACCCTCAAACTTATTTCATTAGTCATCTTGAGTAA
1 TCCACACCCCCAAAATTATTTCATTACTCATCCTGAGTAA
*
19278732 TGCACA
1 TCCACA
19278738 AATTTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (40 bp):
TCCACACCCCCAAAATTATTTCATTACTCATCCTGAGTAA
Found at i:19286295 original size:40 final size:40
Alignment explanation
Indices: 19286212--19286474 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
19286202 TTGAATGCTG
* * * * * *
19286212 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
19286252 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
19286292 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
19286332 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
19286372 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19286412 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19286451 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19286475 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:19286494 original size:79 final size:80
Alignment explanation
Indices: 19286251--19286509 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
19286241 AAGTGAATAT
* * * * * * *
19286251 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
19286315 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
19286331 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
19286396 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
19286411 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
19286475 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
19286490 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
19286510 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Done.