Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 173 of 290
Found at i:59346725 original size:24 final size:26
Alignment explanation
Indices: 59346693--59346776 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 26
59346683 CTGGAGGCCT
* *
59346693 AGCCTTTTTTAATA-ACTGGGG-GAA
1 AGCCCTTTTTAATATACTGGGGCAAA
*
59346717 AGCCC-TTTTGATATACTGGGGCAAA
1 AGCCCTTTTTAATATACTGGGGCAAA
*** * *
59346742 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTTTAATATACTGGGGCAAA
59346767 AGCCCTTTTT
1 AGCCCTTTTT
59346777 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 7 0.14
24 11 0.22
25 17 0.35
26 14 0.29
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (26 bp):
AGCCCTTTTTAATATACTGGGGCAAA
Found at i:59346776 original size:26 final size:24
Alignment explanation
Indices: 59346706--59346775 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
59346696 CTTTTTTAAT
*
59346706 AACTGGGGGAAAGCCCTTTTGATA
1 AACTGGGGCAAAGCCCTTTTGATA
* *
59346730 TACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTT-GATA
*
59346756 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59346776 TGCACTTCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.18
25 21 0.54
26 11 0.28
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTGATA
Found at i:59346848 original size:9 final size:9
Alignment explanation
Indices: 59346834--59346890 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
59346824 ACATCATGTG
59346834 CATATCATA
1 CATATCATA
*
59346843 CATATCATGTG
1 CATATCA--TA
59346854 CATATCATA
1 CATATCATA
*
59346863 CATATCATGTG
1 CATATCA--TA
59346874 CATATCATA
1 CATATCATA
59346883 CATATCAT
1 CATATCAT
59346891 GTATATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:59346851 original size:20 final size:20
Alignment explanation
Indices: 59346826--59346892 Score: 134
Period size: 20 Copynumber: 3.4 Consensus size: 20
59346816 TTATGAATAC
59346826 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59346846 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59346866 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59346886 ATCATGT
1 ATCATGT
59346893 ATATCAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59346857 original size:11 final size:11
Alignment explanation
Indices: 59346826--59346881 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
59346816 TTATGAATAC
59346826 ATCATGTGCAT
1 ATCATGTGCAT
*
59346837 ATCA--TACAT
1 ATCATGTGCAT
59346846 ATCATGTGCAT
1 ATCATGTGCAT
*
59346857 ATCA--TACAT
1 ATCATGTGCAT
59346866 ATCATGTGCAT
1 ATCATGTGCAT
59346877 ATCAT
1 ATCAT
59346882 ACATATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:59346976 original size:24 final size:25
Alignment explanation
Indices: 59346944--59347003 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
59346934 GGGTATAATG
*
59346944 GTCATTTTTACCCAGGGGCAAAATA
1 GTCATTTTCACCCAGGGGCAAAATA
59346969 GTCATTTTCACCCAGGGGCAAAATA
1 GTCATTTTCACCCAGGGGCAAAATA
59346994 GTCATTTTCA
1 GTCATTTTCA
59347004 TATTATAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (25 bp):
GTCATTTTCACCCAGGGGCAAAATA
Found at i:59354565 original size:31 final size:31
Alignment explanation
Indices: 59354530--59354592 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
59354520 CCTTTTCATA
59354530 TTTCATATCTT-ATAACACTGGGCCGAAGCCT
1 TTTCATAT-TTCATAACACTGGGCCGAAGCCT
** *
59354561 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
59354592 T
1 T
59354593 CACTGTAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:59354885 original size:26 final size:24
Alignment explanation
Indices: 59354802--59354884 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
59354792 CTGGAGGCCT
*
59354802 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
59354826 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* *
59354851 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
59354876 AGCCCTTTT
1 AGCCCTTTT
59354885 TGCACTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 7 0.13
24 13 0.25
25 21 0.40
26 12 0.23
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:59354957 original size:9 final size:9
Alignment explanation
Indices: 59354943--59354999 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
59354933 ACATCATGTG
59354943 CATATCATA
1 CATATCATA
*
59354952 CATATCATGTG
1 CATATCA--TA
*
59354963 CATATCGTA
1 CATATCATA
*
59354972 CATATCATGTG
1 CATATCA--TA
59354983 CATATCATA
1 CATATCATA
59354992 CATATCAT
1 CATATCAT
59355000 GTACATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:59354960 original size:20 final size:20
Alignment explanation
Indices: 59354935--59355001 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
59354925 TTATGAATAC
59354935 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59354955 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
59354975 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59354995 ATCATGT
1 ATCATGT
59355002 ACATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59355004 original size:11 final size:11
Alignment explanation
Indices: 59354935--59355005 Score: 73
Period size: 11 Copynumber: 7.0 Consensus size: 11
59354925 TTATGAATAC
*
59354935 ATCATGTGCAT
1 ATCATGTACAT
59354946 ATCA--TACAT
1 ATCATGTACAT
*
59354955 ATCATGTGCAT
1 ATCATGTACAT
59354966 ATC--GTACAT
1 ATCATGTACAT
*
59354975 ATCATGTGCAT
1 ATCATGTACAT
59354986 ATCA--TACAT
1 ATCATGTACAT
59354995 ATCATGTACAT
1 ATCATGTACAT
59355006 CAAAATCCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:59362836 original size:24 final size:24
Alignment explanation
Indices: 59362779--59362915 Score: 157
Period size: 24 Copynumber: 5.7 Consensus size: 24
59362769 CCATGTTTAC
* **
59362779 CCGCACACATAGTGCCTTAGTAAT
1 CCGCACACATAGTGCCATACAAAT
* * * * * *
59362803 TCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
59362827 CCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAAT
*
59362851 CCGCACACATAGTGCCGTACAAAT
1 CCGCACACATAGTGCCATACAAAT
* *
59362875 TCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
*
59362899 TCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
59362916 AAGTCATTTC
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
CCGCACACATAGTGCCATACAAAT
Found at i:59362876 original size:72 final size:72
Alignment explanation
Indices: 59362779--59362915 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
59362769 CCATGTTTAC
* ** * *
59362779 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59362844 TACAAAT
66 TACAAAT
* * *
59362851 CCGCACACATAGTGCCGTACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59362916 AAGTCATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:59364185 original size:15 final size:14
Alignment explanation
Indices: 59364159--59364194 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59364149 CCTTTTCTTC
*
59364159 TTTTATTCATTCAT
1 TTTTATTAATTCAT
59364173 TTATTATTAATTCAT
1 TT-TTATTAATTCAT
59364188 TTTTATT
1 TTTTATT
59364195 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:59367319 original size:16 final size:16
Alignment explanation
Indices: 59367300--59367336 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
59367290 ACTTTTATCA
*
59367300 CTTTTATAATTTAGTC
1 CTTTTACAATTTAGTC
59367316 CTTTTACAATTTAGTC
1 CTTTTACAATTTAGTC
59367332 CTTTT
1 CTTTT
59367337 TTTCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (16 bp):
CTTTTACAATTTAGTC
Found at i:59367690 original size:21 final size:21
Alignment explanation
Indices: 59367666--59367711 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
59367656 AAACAAGGGC
*
59367666 ACACGCCCGTTTAGAAAGGCG
1 ACACGCCCGTGTAGAAAGGCG
* *
59367687 ACACGCCCGTGTGGAAGGGCG
1 ACACGCCCGTGTAGAAAGGCG
59367708 ACAC
1 ACAC
59367712 TATGACAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.33, T:0.11
Consensus pattern (21 bp):
ACACGCCCGTGTAGAAAGGCG
Found at i:59369474 original size:40 final size:40
Alignment explanation
Indices: 59369414--59369597 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
59369404 TATTCGAATG
*
59369414 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
59369454 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
59369494 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
59369534 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
59369574 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
59369598 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:59369547 original size:80 final size:80
Alignment explanation
Indices: 59369414--59369597 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
59369404 TATTCGAATG
* * *
59369414 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
59369478 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
59369494 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
59369559 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
59369574 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
59369598 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:59372272 original size:48 final size:48
Alignment explanation
Indices: 59372101--59372298 Score: 202
Period size: 48 Copynumber: 4.1 Consensus size: 48
59372091 GTAAGATATT
* * * * *
59372101 GATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAG--CTCACATATCGAG-GCC
* * * **
59372151 GATGCCATATTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGTT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * * *
59372199 GATGCCA-GTCCCAGACATGGTCTTACATTAGCTCTCTTATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
59372246 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
59372294 GATGC
1 GATGC
59372299 TATAATAGCC
Statistics
Matches: 119, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
47 35 0.29
48 55 0.46
49 1 0.01
50 28 0.24
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:59372277 original size:95 final size:97
Alignment explanation
Indices: 59372112--59372291 Score: 274
Period size: 95 Copynumber: 1.9 Consensus size: 97
59372102 ATGTCATGTT
* ** *
59372112 CCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCCATATTCCAAACATGGTCTTA
1 CCAGACATGGTCTTACACTAGCTCTCATATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
*
59372177 CACTAGCCCACATGTCGAGGTTGATGCCAGTC
66 CACTAGCCCACATATCGAGGTTGATGCCAGTC
* *
59372209 CCAGACATGGTCTTACATTAGCTCTC-T-TATCAATGCCGATGCCATGTTCCAAACATGGTCTTA
1 CCAGACATGGTCTTACACTAGCTCTCATATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
*
59372272 CACTAGCTCACATATCGAGG
66 CACTAGCCCACATATCGAGG
59372292 CCGATGCTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 50 0.67
96 1 0.01
97 24 0.32
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (97 bp):
CCAGACATGGTCTTACACTAGCTCTCATATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
CACTAGCCCACATATCGAGGTTGATGCCAGTC
Found at i:59374381 original size:50 final size:51
Alignment explanation
Indices: 59374300--59374428 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
59374290 GACTATGGCA
*
59374300 ACAAGTGATAAGTGATAGCTTCGGCTTCACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
59374351 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
59374401 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
59374429 CTGATCAATG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:59374444 original size:31 final size:31
Alignment explanation
Indices: 59374404--59374552 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
59374394 ACAAATGACA
*
59374404 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
59374435 AATGAAAAGTGGTAGCTTCTGCTACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59374466 AGTGAAAAGTGGTAG-TTCCGGCTACCAGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
59374497 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59374528 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
59374553 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 100 0.97
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:59374563 original size:7 final size:7
Alignment explanation
Indices: 59374551--59374586 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
59374541 AGCTTCGGCT
59374551 ACAAGTG
1 ACAAGTG
59374558 ACAAGTG
1 ACAAGTG
59374565 ACAAGTG
1 ACAAGTG
59374572 ACAAGTG
1 ACAAGTG
59374579 ACAAGTG
1 ACAAGTG
59374586 A
1 A
59374587 TTTCTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:59374660 original size:47 final size:47
Alignment explanation
Indices: 59374590--59374755 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 47
59374580 CAAGTGATTT
* * *
59374590 CTGTATAAGGCCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
59374637 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
59374684 C-GTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * *
59374726 -TGTGTAAGACCATATTTGGGCTATGGCATC
1 CTGTATAAGACCATATCTGGGATATGGCATC
59374756 ATTATGTGAA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 25 0.25
47 41 0.40
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:59374746 original size:42 final size:42
Alignment explanation
Indices: 59374685--59374798 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
59374675 TATGTGATTC
* *
59374685 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATATGAAGAT
* *
59374727 GTGTAAGACCATATTTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
**
59374769 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGTTGGGCTATGGCATCA
59374799 AGAAAACGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
Found at i:59379354 original size:28 final size:28
Alignment explanation
Indices: 59379314--59379369 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
59379304 CTGTCGAAAG
59379314 TAAGACCTAAAACTATTCACTCCTAAGA
1 TAAGACCTAAAACTATTCACTCCTAAGA
*
59379342 TAAGACCTAAAACTATTCACTTCTAAGA
1 TAAGACCTAAAACTATTCACTCCTAAGA
59379370 CACTATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (28 bp):
TAAGACCTAAAACTATTCACTCCTAAGA
Found at i:59383279 original size:13 final size:13
Alignment explanation
Indices: 59383261--59383285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59383251 AGGGGCACAT
59383261 GCCCGTGTGGCTA
1 GCCCGTGTGGCTA
59383274 GCCCGTGTGGCT
1 GCCCGTGTGGCT
59383286 CCCATGGCCT
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:0.04, C:0.32, G:0.40, T:0.24
Consensus pattern (13 bp):
GCCCGTGTGGCTA
Found at i:59384396 original size:54 final size:52
Alignment explanation
Indices: 59384291--59384409 Score: 175
Period size: 54 Copynumber: 2.2 Consensus size: 52
59384281 ATATTTCGGA
* * *
59384291 TATGGTCTTACACGGGAGCATTTATCACTTTTCTCTGATGCCATAGCCCAGC
1 TATGGTCTTATACGGGAGCACTTATCACTTTTCTCCGATGCCATAGCCCAGC
* *
59384343 TATGGTCTTATACGGGAATCACTTATCACTTATTTTCCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGG-AGCACTTATCACTT-TTCTCCGATGCCATAGCCCAGC
59384397 TATGGTCTTATAC
1 TATGGTCTTATAC
59384410 AAATATCGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 15 0.25
53 12 0.20
54 33 0.55
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
TATGGTCTTATACGGGAGCACTTATCACTTTTCTCCGATGCCATAGCCCAGC
Found at i:59384422 original size:54 final size:53
Alignment explanation
Indices: 59384312--59384427 Score: 162
Period size: 54 Copynumber: 2.2 Consensus size: 53
59384302 ACGGGAGCAT
* **
59384312 TTATCACTTTTCTCTGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCAC
1 TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCAC
* *
59384365 TTATCACTTATTTTCCGATGCCATAGCCCAGCTATGGTCTTATAC-AAATATCGC
1 TTATCACTT-TTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAA-ATCAC
59384419 TTATCACTT
1 TTATCACTT
59384428 GTTGCCATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
53 10 0.18
54 46 0.82
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (53 bp):
TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCAC
Found at i:59386534 original size:56 final size:56
Alignment explanation
Indices: 59386448--59386560 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
59386438 AATTGGCCCG
59386448 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGCCTAGTTTCAGGGAA
1 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGCCTAGTTTCAGGGAA
* *
59386504 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATGTGAGTCTAGTTTCAGGGAA
1 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGCCTAGTTTCAGGGAA
59386560 A
1 A
59386561 AATCACGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (56 bp):
ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGCCTAGTTTCAGGGAA
Found at i:59392562 original size:40 final size:40
Alignment explanation
Indices: 59392508--59393012 Score: 751
Period size: 40 Copynumber: 12.6 Consensus size: 40
59392498 CATTTGAATG
*
59392508 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59392548 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59392588 ATATCCGGGCTAAGCCCCGAAGGCATTAGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59392628 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59392668 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59392708 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
59392748 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
59392788 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
59392828 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
** *
59392868 ATATCCGGGCTAAGACCCGACTGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59392908 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * * *
59392948 ATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
59392988 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
59393013 ATTGAGCTTG
Statistics
Matches: 416, Mismatches: 47, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 2 0.00
40 413 0.99
41 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:59393035 original size:160 final size:160
Alignment explanation
Indices: 59392512--59393012 Score: 833
Period size: 160 Copynumber: 3.1 Consensus size: 160
59392502 TGAATGATAT
* * * * * *
59392512 CCGGGCTAAGACCCGAAGGTATTTGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTTG
* * *
59392577 TGCGAATTGATATATCCGGGCTAAGCCCCGAAGGC-ATTAGTGCGAATTGATATATCCGGGTTAA
66 TGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAATTGATATATCCGGGCTAA
* * * *
59392641 GACCCGAAGGCATTTGTGCGAATTGATATAT
130 GACCCGAAGGCATTCGTGCGAGTTGCTATAC
*
59392672 CCGGGATAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTTG
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTTG
*
59392737 TGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAG
66 TGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTGATATATCCGGGCTAAG
59392802 ACCCGAAGGCATTCGTGCGAGTTGCTATAC
131 ACCCGAAGGCATTCGTGCGAGTTGCTATAC
*
59392832 CCGGGTTAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACTGCGTTTG
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTTG
*
59392897 TGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTGATATATCCAGGCTAAG
66 TGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTGATATATCCGGGCTAAG
59392962 ACCCGAAGGCATTCGTGCGAGTTGCTATAC
131 ACCCGAAGGCATTCGTGCGAGTTGCTATAC
59392992 CCGGGTTAAGACCCGAAGGCA
1 CCGGGTTAAGACCCGAAGGCA
59393013 ATTGAGCTTG
Statistics
Matches: 322, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
160 319 0.99
161 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (160 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTTG
TGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATTGATATATCCGGGCTAAG
ACCCGAAGGCATTCGTGCGAGTTGCTATAC
Found at i:59393505 original size:150 final size:150
Alignment explanation
Indices: 59393234--59393533 Score: 582
Period size: 150 Copynumber: 2.0 Consensus size: 150
59393224 TTGTGTGTGT
*
59393234 ATATGTTGATGAAGTTTGAAGTAAGTATGCATATGAGAATGTGAATTAATAAAGTGATTTATTTA
1 ATATGTTGATGAAGTGTGAAGTAAGTATGCATATGAGAATGTGAATTAATAAAGTGATTTATTTA
59393299 GCTATGTGAATGCAATACTTTAGTAAAAGCCGATTTCATTACTTGAAACTTACTAAGCTTTAAAA
66 GCTATGTGAATGCAATACTTTAGTAAAAGCCGATTTCATTACTTGAAACTTACTAAGCTTTAAAA
59393364 TGCTTACCCCGTTGCTTTGG
131 TGCTTACCCCGTTGCTTTGG
59393384 ATATGTTGATGAAGTGTGAAGTAAGTATGCATATGAGAATGTGAATTAATAAAGTGATTTATTTA
1 ATATGTTGATGAAGTGTGAAGTAAGTATGCATATGAGAATGTGAATTAATAAAGTGATTTATTTA
*
59393449 GCTATGTGAATGCAATACTTTAGTCAAAGCCGATTTCATTACTTGAAACTTACTAAGCTTTAAAA
66 GCTATGTGAATGCAATACTTTAGTAAAAGCCGATTTCATTACTTGAAACTTACTAAGCTTTAAAA
59393514 TGCTTACCCCGTTGCTTTGG
131 TGCTTACCCCGTTGCTTTGG
59393534 CTCTCTGTTT
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 148 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (150 bp):
ATATGTTGATGAAGTGTGAAGTAAGTATGCATATGAGAATGTGAATTAATAAAGTGATTTATTTA
GCTATGTGAATGCAATACTTTAGTAAAAGCCGATTTCATTACTTGAAACTTACTAAGCTTTAAAA
TGCTTACCCCGTTGCTTTGG
Found at i:59398724 original size:18 final size:17
Alignment explanation
Indices: 59398701--59398737 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
59398691 GAATACCTTC
*
59398701 TTTTCCCTTCTCTGCTCT
1 TTTTCCC-TCTCTACTCT
59398719 TTTTCCCTCTCTACTCT
1 TTTTCCCTCTCTACTCT
59398736 TT
1 TT
59398738 CAGCTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.03, C:0.38, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTCCCTCTCTACTCT
Found at i:59400021 original size:34 final size:34
Alignment explanation
Indices: 59399949--59400014 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
59399939 GCATATATAT
*
59399949 ACTGTTACTGTCACTGAATTGGGCTAAGGCCCAC
1 ACTGATACTGTCACTGAATTGGGCTAAGGCCCAC
* *
59399983 ACTGATACTGTTACTGTAA-TGGGTTAAGGCCC
1 ACTGATACTGTCACTG-AATTGGGCTAAGGCCC
59400015 TAACTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGATACTGTCACTGAATTGGGCTAAGGCCCAC
Found at i:59405916 original size:22 final size:22
Alignment explanation
Indices: 59405882--59405950 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
59405872 TATGCACTAT
* *
59405882 TAAACAGAGAGCACAAAAGTGT
1 TAAACAGATAGCACAAAAGTGC
* * *
59405904 TATACAGATAGCACAGATGTGC
1 TAAACAGATAGCACAAAAGTGC
* *
59405926 TAAACAGATAGCACTAATGTGC
1 TAAACAGATAGCACAAAAGTGC
59405948 TAA
1 TAA
59405951 TAATCAAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
TAAACAGATAGCACAAAAGTGC
Found at i:59412738 original size:109 final size:109
Alignment explanation
Indices: 59412547--59412764 Score: 418
Period size: 109 Copynumber: 2.0 Consensus size: 109
59412537 CCCTAGTCGA
*
59412547 AGTTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCGAAACAAAAGGGT
1 AGTTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCAAAACAAAAGGGT
59412612 TCCGTTAGTTAAGGTGTTATGGCTCAAACACGGGATCGAGGAAT
66 TCCGTTAGTTAAGGTGTTATGGCTCAAACACGGGATCGAGGAAT
*
59412656 AGTTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAGGTGAAGGAGTTGCAAAACAAAAGGGT
1 AGTTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCAAAACAAAAGGGT
59412721 TCCGTTAGTTAAGGTGTTATGGCTCAAACACGGGATCGAGGAAT
66 TCCGTTAGTTAAGGTGTTATGGCTCAAACACGGGATCGAGGAAT
59412765 CTACTTGGGA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (109 bp):
AGTTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTGAAGGAGTTGCAAAACAAAAGGGT
TCCGTTAGTTAAGGTGTTATGGCTCAAACACGGGATCGAGGAAT
Found at i:59414714 original size:28 final size:28
Alignment explanation
Indices: 59414674--59414995 Score: 610
Period size: 28 Copynumber: 11.5 Consensus size: 28
59414664 TAAATTGTAC
59414674 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414702 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414730 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414758 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414786 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414814 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414842 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414870 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
59414898 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
59414926 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
59414954 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
59414981 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59414996 GACTTAATAT
Statistics
Matches: 292, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
27 24 0.08
28 268 0.92
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:59416453 original size:119 final size:119
Alignment explanation
Indices: 59416242--59416478 Score: 447
Period size: 119 Copynumber: 2.0 Consensus size: 119
59416232 ATCCAATTCC
* *
59416242 TAATGTGCAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGATTTTGACTAATAAAATGTACT
1 TAATGTGAAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAAATGTACT
59416307 AATTGGCCCGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTCG
66 AATTGGCCCGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTCG
*
59416361 TAATGTGAAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACT
1 TAATGTGAAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAAATGTACT
59416426 AATTGGCCCGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTC
66 AATTGGCCCGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTC
59416479 TAGTTCCAGG
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (119 bp):
TAATGTGAAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAAATGTACT
AATTGGCCCGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTCG
Found at i:59419059 original size:144 final size:144
Alignment explanation
Indices: 59418799--59419085 Score: 529
Period size: 144 Copynumber: 2.0 Consensus size: 144
59418789 TGCACCAGTA
*
59418799 TTGTTCGTGAAAAAGAAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGT
1 TTGTTCGTGAAAAAGAAGGACAGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGT
* *
59418864 GACGATAAAGAACAAATATCCGTTACCGCGTATCGATGATTTGTTCGACCAACTGAAGGGAGCCT
66 GACGATAAAGAACAAATATCCATTACCGCGCATCGATGATTTGTTCGACCAACTGAAGGGAGCCT
59418929 CAATGTTCTCAAAG
131 CAATGTTCTCAAAG
59418943 TTGTTCGTGAAAAAGAAGGACAGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGT
1 TTGTTCGTGAAAAAGAAGGACAGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGT
*
59419008 GACGATAAAGAACAAATATCCATTGCCGCGCATCGATGATTTGTTCGACCAACTGAAGGGAGCCT
66 GACGATAAAGAACAAATATCCATTACCGCGCATCGATGATTTGTTCGACCAACTGAAGGGAGCCT
*
59419073 CAGTGTTCTCAAA
131 CAATGTTCTCAAA
59419086 AATAGATTTG
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 138 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (144 bp):
TTGTTCGTGAAAAAGAAGGACAGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGT
GACGATAAAGAACAAATATCCATTACCGCGCATCGATGATTTGTTCGACCAACTGAAGGGAGCCT
CAATGTTCTCAAAG
Found at i:59419712 original size:65 final size:65
Alignment explanation
Indices: 59419608--59419736 Score: 231
Period size: 65 Copynumber: 2.0 Consensus size: 65
59419598 AAAAGGATGT
* *
59419608 TAAGTTCGAGTGGACGGAGAAATGTCAGAAAAGTTTCGATCAACTGAAAACTCATTTGACTGAAC
1 TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAC
*
59419673 TAAGTTCGAATGGACGGAGAAATGTCAGAAAGGCTTCGATCAACTGAAAACTCATTTGACTGAA
1 TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAA
59419737 GCTCCAATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (65 bp):
TAAGTTCGAATGGACGGAGAAATGTCAGAAAAGCTTCGATCAACTGAAAACTCATTTGACTGAAC
Found at i:59420409 original size:72 final size:72
Alignment explanation
Indices: 59420322--59420467 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
59420312 CGATTGTTTG
*
59420322 AGGTTCAGAAGTCGGTTGTGTGTTCCAAAAAATTTAGAACTCATTTCGATGATTCTGAACGAAGC
1 AGGTTCAGAAGTCGGTTGTGTGTTCCAAAAAATTCAGAACTCATTTCGATGATTCTGAACGAAGC
59420387 TCATTGT
66 TCATTGT
*
59420394 AGGTTCAGAAGTCGGTTGTGTGTTCCAAGAAATTCAGAACTCATTTCGATGATTCTGAACGAAGC
1 AGGTTCAGAAGTCGGTTGTGTGTTCCAAAAAATTCAGAACTCATTTCGATGATTCTGAACGAAGC
59420459 TCATTGT
66 TCATTGT
59420466 AG
1 AG
59420468 CCGAATGTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (72 bp):
AGGTTCAGAAGTCGGTTGTGTGTTCCAAAAAATTCAGAACTCATTTCGATGATTCTGAACGAAGC
TCATTGT
Found at i:59421926 original size:61 final size:62
Alignment explanation
Indices: 59421852--59421975 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 62
59421842 ATATGTACAT
* *
59421852 GTGCATGTGTGAAAATTTCGTGTTTGAATTTTG-TTAATTGTAAGTGAATTTTA-TCAAATAG
1 GTGCATGTGTGAAAATTTCATATTTGAATTTTGTTTAATTGTAAGTGAATTTTAGT-AAATAG
*
59421913 GTGCATGTGTGAAAATTTCATATTTGAATTTTGTTTAATTGTAGGTGAATTTTAGTAAATAG
1 GTGCATGTGTGAAAATTTCATATTTGAATTTTGTTTAATTGTAAGTGAATTTTAGTAAATAG
59421975 G
1 G
59421976 ACTTATGTGA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
61 31 0.53
62 26 0.45
63 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (62 bp):
GTGCATGTGTGAAAATTTCATATTTGAATTTTGTTTAATTGTAAGTGAATTTTAGTAAATAG
Found at i:59422208 original size:21 final size:21
Alignment explanation
Indices: 59422167--59422208 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59422157 AAGAAAGGAA
* **
59422167 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
59422188 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
59422209 GGTTATTACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:59423733 original size:27 final size:28
Alignment explanation
Indices: 59423652--59423801 Score: 205
Period size: 27 Copynumber: 5.4 Consensus size: 28
59423642 GAGATTGGCG
* * * *
59423652 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
59423681 CTAAGTGTGCGAGTTTGATTGTGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59423709 CTAAGTGTGCGAG-TTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59423736 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59423764 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59423791 CTGAGTGTGCG
1 CTAAGTGTGCG
59423802 GACTTAATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 50 0.44
28 48 0.42
29 15 0.13
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:59423742 original size:55 final size:55
Alignment explanation
Indices: 59423677--59423801 Score: 214
Period size: 55 Copynumber: 2.3 Consensus size: 55
59423667 TAAATTGTAC
* * *
59423677 AGCACTAAGTGTGCGAGTTTGATTGTGTAGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
59423732 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
*
59423787 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59423802 GACTTAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:59424995 original size:43 final size:42
Alignment explanation
Indices: 59424934--59425019 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
59424924 TCATTATCAA
* *
59424934 TTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGAT
1 TTAACCAGAGATAATTAGGAGTCATACCATATATGTACAGAT
* *
59424976 NTTAACCAGAGATAATTAGGGGTCGTACCATATATGTACAGAT
1 -TTAACCAGAGATAATTAGGAGTCATACCATATATGTACAGAT
59425019 T
1 T
59425020 CCTCTCTGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (42 bp):
TTAACCAGAGATAATTAGGAGTCATACCATATATGTACAGAT
Found at i:59431981 original size:40 final size:39
Alignment explanation
Indices: 59431950--59432159 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
59431940 GGACTAAGAT
* *
59431950 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
59431990 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
59432030 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
59432070 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
59432110 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
59432149 CCGAAGGCATT
1 CCGAAGGCATT
59432160 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:59432113 original size:120 final size:120
Alignment explanation
Indices: 59431897--59432159 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
59431887 TTGAATGCTG
* *
59431897 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
59431961 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
59432017 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
59432080 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
59432136 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
59432160 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:59432179 original size:79 final size:80
Alignment explanation
Indices: 59431950--59432194 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
59431940 GGACTAAGAT
* * * * * * * ** *
59431950 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
59432013 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
59432030 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
59432095 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
59432110 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
59432174 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
59432188 CCGAAGG
1 CCGAAGG
59432195 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:59437372 original size:26 final size:26
Alignment explanation
Indices: 59437343--59437395 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
59437333 AAATCCAGAG
59437343 TTAATTCAGTTGATTTTGAATTAGGC
1 TTAATTCAGTTGATTTTGAATTAGGC
*
59437369 TTAATTCAGTTGATTTTGAGTTAGGC
1 TTAATTCAGTTGATTTTGAATTAGGC
59437395 T
1 T
59437396 CACAGCAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.47
Consensus pattern (26 bp):
TTAATTCAGTTGATTTTGAATTAGGC
Found at i:59440774 original size:25 final size:25
Alignment explanation
Indices: 59440741--59440805 Score: 105
Period size: 24 Copynumber: 2.6 Consensus size: 25
59440731 TTTAATAACC
*
59440741 GGGGCAAAGCCCTTTTTGGTAAACT
1 GGGGCAAAGCCCTTTTCGGTAAACT
*
59440766 GGGGTAAAG-CCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTCGGTAAACT
59440790 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
59440806 AGCACTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 22 0.61
25 14 0.39
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGGTAAACT
Found at i:59441205 original size:27 final size:27
Alignment explanation
Indices: 59441011--59441197 Score: 257
Period size: 27 Copynumber: 6.9 Consensus size: 27
59441001 GGGCAAAATG
* * * * *
59441011 GTAATTTTACCCCACAAGGTTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59441038 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59441065 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
59441092 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
59441119 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59441146 GTAACTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59441173 GTAATTCTACACTACAAGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
59441198 TGGTAATTTT
Statistics
Matches: 142, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:59448703 original size:79 final size:82
Alignment explanation
Indices: 59448592--59448776 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
59448582 GCTACTCGTT
* *
59448592 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59448655 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59448672 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59448735 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59448752 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59448777 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59448776 original size:40 final size:40
Alignment explanation
Indices: 59448573--59448776 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
59448563 CGGAATTTAA
** *
59448573 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59448613 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59448653 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59448692 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59448732 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59448772 CCGGA
1 CCGGA
59448777 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59456502 original size:32 final size:32
Alignment explanation
Indices: 59456456--59456525 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
59456446 TTGGAAATCA
*
59456456 ACACGGCCTGGACTTCCTCACACAAGTAGGCC
1 ACACGGCCTAGACTTCCTCACACAAGTAGGCC
** *
59456488 ACACGGCCTAGACTTCCTCACACGGGTAGGCT
1 ACACGGCCTAGACTTCCTCACACAAGTAGGCC
59456520 ACACGG
1 ACACGG
59456526 TCGTGTTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (32 bp):
ACACGGCCTAGACTTCCTCACACAAGTAGGCC
Found at i:59457925 original size:13 final size:13
Alignment explanation
Indices: 59457907--59457931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59457897 AGGATTATTC
59457907 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
59457920 TTTTCTTTCTTT
1 TTTTCTTTCTTT
59457932 ATCCAACTGA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:59459117 original size:11 final size:11
Alignment explanation
Indices: 59459091--59459143 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
59459081 ACATTGATAT
*
59459091 ACATGATAT-A
1 ACATGATATGC
59459101 ACATGATATGC
1 ACATGATATGC
59459112 ACATGATATG-
1 ACATGATATGC
**
59459122 TTATGATATGC
1 ACATGATATGC
59459133 ACATGATATGC
1 ACATGATATGC
59459144 TATGATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 17 0.47
11 19 0.53
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:59459117 original size:21 final size:21
Alignment explanation
Indices: 59459091--59459141 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
59459081 ACATTGATAT
59459091 ACATGATATAACATGATATGC
1 ACATGATATAACATGATATGC
***
59459112 ACATGATATGTTATGATATGC
1 ACATGATATAACATGATATGC
59459133 ACATGATAT
1 ACATGATAT
59459142 GCTATGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (21 bp):
ACATGATATAACATGATATGC
Found at i:59459142 original size:21 final size:21
Alignment explanation
Indices: 59459103--59459151 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
59459093 ATGATATAAC
*
59459103 ATGATATGCACATGATATGTT
1 ATGATATGCACATGATATGCT
59459124 ATGATATGCACATGATATGCT
1 ATGATATGCACATGATATGCT
59459145 ATGATAT
1 ATGATAT
59459152 ATTCACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGATATGCACATGATATGCT
Found at i:59459236 original size:25 final size:24
Alignment explanation
Indices: 59459199--59459269 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 24
59459189 AGGAAGTGTG
*
59459199 GAAAAGGGATTTGCCCTAGTTTACC
1 GAAAAGGGCTTTGCCC-AGTTTACC
*
59459224 GAAAAGGGCTTTGCCCCAGTTTATC
1 GAAAAGGGCTTTG-CCCAGTTTACC
59459249 GAAAAGGGCTTTGTCCCAGTT
1 GAAAAGGGCTTTG-CCCAGTT
59459270 ATTTAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 39 0.93
26 3 0.07
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (24 bp):
GAAAAGGGCTTTGCCCAGTTTACC
Found at i:59463959 original size:22 final size:22
Alignment explanation
Indices: 59463934--59463975 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
59463924 TTTAGCAGAA
59463934 CAATACAATATCATTTAATAAT
1 CAATACAATATCATTTAATAAT
59463956 CAATACAATATCATTTAATA
1 CAATACAATATCATTTAATA
59463976 TGCTTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
CAATACAATATCATTTAATAAT
Found at i:59469344 original size:50 final size:48
Alignment explanation
Indices: 59469218--59469393 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 48
59469208 TGAGGTCGCA
* * * * *
59469218 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCTATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAA-TT-GGTCACG
* * **
59469269 TGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAATT-GGTCACG
* * *
59469319 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCG-ATAATTGGTCACG
59469368 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
59469394 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 33 0.31
50 41 0.39
51 32 0.30
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCACG
Found at i:59469390 original size:49 final size:48
Alignment explanation
Indices: 59469211--59469402 Score: 190
Period size: 49 Copynumber: 3.9 Consensus size: 48
59469201 TCTATTGTGA
* * * *
59469211 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCTATAACT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAATAATT
* **
59469260 --TCGATCATGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCG--CATGTG--TAGTACTAAGTGCAGGCTACTACGTGTACCA-ATAATT
* * *
59469311 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AATAATT
* *
59469361 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
59469403 GATAGCTTTG
Statistics
Matches: 116, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
47 3 0.03
48 1 0.01
49 42 0.36
50 33 0.28
51 30 0.26
52 5 0.04
54 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATAATT
Found at i:59469915 original size:15 final size:15
Alignment explanation
Indices: 59469895--59469931 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
59469885 TATGGGTTAT
59469895 AATCTATATTCTTAG
1 AATCTATATTCTTAG
*
59469910 AATCTATATTCTTAT
1 AATCTATATTCTTAG
59469925 AATCTAT
1 AATCTAT
59469932 TTCGATGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (15 bp):
AATCTATATTCTTAG
Found at i:59472185 original size:16 final size:15
Alignment explanation
Indices: 59472136--59472185 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
59472126 GTGCTGTAAA
59472136 TTGGA-TTCTTGTATC
1 TTGGATTTCTT-TATC
*
59472151 ATGGATTTCTTTATC
1 TTGGATTTCTTTATC
59472166 TTGGATTTCTTTATTC
1 TTGGATTTCTTTA-TC
59472182 TTGG
1 TTGG
59472186 CTTCTCTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:59475081 original size:50 final size:49
Alignment explanation
Indices: 59474957--59475139 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 49
59474947 TCTATTGTGA
* * *
59474957 GGTCGCATGTGTAGTATTAAGTGCAGGCTACT--ATGCATACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATG--TACCAGATAA-TT
* * * * **
59475007 CGATCACATGTGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * *
59475057 AGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
*
59475107 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
59475140 TGCGTACCAG
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
49 30 0.28
50 42 0.39
51 34 0.31
53 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
Found at i:59475151 original size:99 final size:100
Alignment explanation
Indices: 59474964--59475151 Score: 247
Period size: 99 Copynumber: 1.9 Consensus size: 100
59474954 TGAGGTCGCA
*
59474964 TGTGTAGTATTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACATGTGTAATACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATG-ATACCCGATAACTTCGATCACATGTGTAATACTAAG
* *
59475029 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
65 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
* * * * *
59475065 TGTGTAGTACTAAGTGCAGGCTATTACATG-TACCGGATAA-TT-GGTCGCATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACT--ATGATACCCGATAACTTCGATCACATGTGTAATACTAA
*
59475127 GTGCAGGCTACTATGCGTACCAGAT
64 GTGCAGGCTACTACGCGTACCAGAT
59475152 AGCTTTGGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
99 39 0.51
100 2 0.03
101 32 0.42
103 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGATACCCGATAACTTCGATCACATGTGTAATACTAAGT
GCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
Found at i:59483061 original size:27 final size:26
Alignment explanation
Indices: 59483013--59483064 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59483003 ACGAGGCTGC
*
59483013 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
59483039 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
59483065 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59485182 original size:47 final size:47
Alignment explanation
Indices: 59485062--59485187 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
59485052 GGCAGAGCGC
** *
59485062 CGATGCCATGTCCCAGACATGGTCTTACGGTGGACCATACATTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGACCATACATTAAGT
* ** * *
59485109 TGATGTGATGTCCCAGACACGGTCTTATACTAG-CTCATACATTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGAC-CATACATTAAGT
*
59485156 CGATGCCATGTCCCAGACATGTTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
59485188 ACTATCATAA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGACCATACATTAAGT
Found at i:59489544 original size:16 final size:16
Alignment explanation
Indices: 59489504--59489538 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
59489494 TAAAAGATCA
59489504 CAAAGGGAAAAATGGT
1 CAAAGGGAAAAATGGT
59489520 CAAAGGGAAAAATGGT
1 CAAAGGGAAAAATGGT
59489536 CAA
1 CAA
59489539 TTGGAAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.29, T:0.11
Consensus pattern (16 bp):
CAAAGGGAAAAATGGT
Found at i:59489670 original size:11 final size:11
Alignment explanation
Indices: 59489654--59489678 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59489644 ATATGATATT
59489654 TTATTATTTTA
1 TTATTATTTTA
59489665 TTATTATTTTA
1 TTATTATTTTA
59489676 TTA
1 TTA
59489679 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:59492536 original size:47 final size:47
Alignment explanation
Indices: 59492485--59492594 Score: 193
Period size: 47 Copynumber: 2.3 Consensus size: 47
59492475 GAAGTCGTTA
59492485 AGTTGAGTCCGAGTTCGTGAGATATAATCACGCATCCGAACTCATTG
1 AGTTGAGTCCGAGTTCGTGAGATATAATCACGCATCCGAACTCATTG
* * *
59492532 AGTTGAGTCCGAGTTCGTGATATATAATCAGGCATCCGAACTCGTTG
1 AGTTGAGTCCGAGTTCGTGAGATATAATCACGCATCCGAACTCATTG
59492579 AGTTGAGTCCGAGTTC
1 AGTTGAGTCCGAGTTC
59492595 ACTTATGGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (47 bp):
AGTTGAGTCCGAGTTCGTGAGATATAATCACGCATCCGAACTCATTG
Found at i:59497525 original size:22 final size:22
Alignment explanation
Indices: 59497500--59497553 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
59497490 TATCCTCATA
*
59497500 TGGTGTGTGGGGTTGAACGGAG
1 TGGTGTGTAGGGTTGAACGGAG
*
59497522 TGGTGTGTAGGGTTGGACGGAG
1 TGGTGTGTAGGGTTGAACGGAG
*
59497544 TGGTGAGTAG
1 TGGTGTGTAG
59497554 AGGCTGGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.15, C:0.04, G:0.54, T:0.28
Consensus pattern (22 bp):
TGGTGTGTAGGGTTGAACGGAG
Found at i:59499684 original size:16 final size:16
Alignment explanation
Indices: 59499663--59499699 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
59499653 CTTTTTGTTA
59499663 TGTATTATGATTATTT
1 TGTATTATGATTATTT
59499679 TGTATTATGATTATTT
1 TGTATTATGATTATTT
59499695 TGTAT
1 TGTAT
59499700 ATGGCCATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (16 bp):
TGTATTATGATTATTT
Found at i:59502803 original size:19 final size:21
Alignment explanation
Indices: 59502779--59502817 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59502769 TGTGGCAAAG
59502779 ACAT-GGAGT-TGAGGAGGCT
1 ACATGGGAGTCTGAGGAGGCT
59502798 ACATGGGAGTCTGAGGAGGC
1 ACATGGGAGTCTGAGGAGGC
59502818 AATGAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.18
Consensus pattern (21 bp):
ACATGGGAGTCTGAGGAGGCT
Found at i:59510611 original size:55 final size:55
Alignment explanation
Indices: 59510476--59510611 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 55
59510466 ACGGCTGAGA
* **
59510476 CACACGCCCGTGTCTCAGGTAGTGTAACCTTTGAACTAGGGACACACGGTTGTGT
1 CACACGCCCATGTCTCAGGCCGTGTAACCTTTGAACTAGGGACACACGGTTGTGT
* * * * *
59510531 C-C-CTGCCCATGTCCTCA-ACCATGTAACTCTTTG-AGTAGGGTCACATGGTTGTGT
1 CACAC-GCCCATGT-CTCAGGCCGTGTAAC-CTTTGAACTAGGGACACACGGTTGTGT
*
59510585 CACACGCCCATGTGTCAGGCCGTGTAA
1 CACACGCCCATGTCTCAGGCCGTGTAA
59510612 GTAAGTGACT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
53 1 0.02
54 36 0.56
55 26 0.41
56 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (55 bp):
CACACGCCCATGTCTCAGGCCGTGTAACCTTTGAACTAGGGACACACGGTTGTGT
Found at i:59524356 original size:68 final size:64
Alignment explanation
Indices: 59524246--59524498 Score: 210
Period size: 68 Copynumber: 3.9 Consensus size: 64
59524236 ATACAAATGG
* ** * * * *
59524246 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
59524309 ATTA
62 A-TA
* *
59524313 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
59524378 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
59524443 TA
63 TA
* * * *
59524445 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
59524499 AAAAATTATG
Statistics
Matches: 153, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 23 0.15
67 33 0.22
68 48 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:59524396 original size:64 final size:64
Alignment explanation
Indices: 59524315--59524498 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
59524305 AGACATTATG
* * *
59524315 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
59524379 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59524444 AA
63 AA
* * *
59524446 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
59524499 AAAAATTATG
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59537503 original size:43 final size:42
Alignment explanation
Indices: 59537450--59537616 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 42
59537440 GATTACGAGA
* *
59537450 TGTGAGTACATGTAAGACCCTGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATT-TAT
*
59537493 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATTA-
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCAT--TTAT
* * **
59537536 TATGACTT-CGTGTAAGACCATGTCTAGGACATTGGCATCAAT
1 TGTGA-TTACATGTAAGACCATGTCTAGGACATTGGCATTTAT
* * * *
59537578 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATT
59537617 ACACGAGCTT
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 90 0.87
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTTAT
Found at i:59543945 original size:43 final size:41
Alignment explanation
Indices: 59543879--59544024 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 41
59543869 AACTCGTATA
*
59543879 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACATGTAATCAAA-AT-G
*** *
59543922 ATGCC-ACTGTCCCAGACAGGGTCTTACACCAAATCACACATG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACATGTAATCA-AAATG
* *
59543964 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCACAAATTG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGT-AATCA-AAA-TG
59544008 ATGCCAACGTCCCAGAC
1 ATGCCAACGTCCCAGAC
59544025 GTGGACTTAC
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
42 27 0.31
43 39 0.45
44 20 0.23
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTAATCAAAATG
Found at i:59551013 original size:17 final size:17
Alignment explanation
Indices: 59550991--59551023 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59550981 CAAAGAGGGT
59550991 ATTTTTGAAAAAAATTG
1 ATTTTTGAAAAAAATTG
*
59551008 ATTTTTGAAAACAATT
1 ATTTTTGAAAAAAATT
59551024 TTTTTGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTTTTGAAAAAAATTG
Found at i:59560036 original size:40 final size:40
Alignment explanation
Indices: 59559938--59560280 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
59559928 TCCTCGTTCA
* * * * *
59559938 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59559977 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59560017 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59560057 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59560097 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59560137 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59560177 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
59560217 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
59560257 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59560281 CAGCATTCAA
Statistics
Matches: 280, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 235 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59568296 original size:40 final size:40
Alignment explanation
Indices: 59567967--59568284 Score: 548
Period size: 40 Copynumber: 8.0 Consensus size: 40
59567957 TCCTCGTTCA
* * * * *
59567967 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59568006 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59568046 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59568086 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59568126 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59568166 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59568206 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59568246 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
59568285 AAAGGTTTTC
Statistics
Matches: 269, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
39 34 0.13
40 235 0.87
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59571836 original size:43 final size:42
Alignment explanation
Indices: 59571767--59571880 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
59571757 AACTCGTACA
* * *
59571767 ATGCCAACATCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
* * *
59571810 ATGGCACTATCCCAGACAGGGTCTTACACGAAATCACATATG
1 ATGCCAATATCCCAGACAGGGTCTTACACGAAATCAAATATG
* * *
59571852 ATGCCAATGTCTCAGACATGGTCTTACAC
1 ATGCCAATATCCCAGACAGGGTCTTACAC
59571881 ATAAATCACA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 25 0.42
43 33 0.56
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGAAATCAAATATG
Found at i:59573688 original size:36 final size:37
Alignment explanation
Indices: 59573631--59573701 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
59573621 TTTATCACAT
*
59573631 TGGCATGCTTAACATGCGAGTCAGAATATCAAAATTA
1 TGGCATGCTTAACATGAGAGTCAGAATATCAAAATTA
59573668 TGGCATGC-TAACATGAGAGTCAGAATATCAAAAT
1 TGGCATGCTTAACATGAGAGTCAGAATATCAAAAT
59573702 AATCATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (37 bp):
TGGCATGCTTAACATGAGAGTCAGAATATCAAAATTA
Found at i:59580879 original size:37 final size:37
Alignment explanation
Indices: 59580838--59580916 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
59580828 ATATGTTATT
*
59580838 ATTTTGATATTCTGACTCGCATGTTAAACATTCCATA
1 ATTTTGATATTCTGACTCGCATGTTAAACATGCCATA
*
59580875 ATTTTGATATTCTGACTCGCATGTTAAGCATGCCATA
1 ATTTTGATATTCTGACTCGCATGTTAAACATGCCATA
*
59580912 TTTTT
1 ATTTT
59580917 TATTTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.43
Consensus pattern (37 bp):
ATTTTGATATTCTGACTCGCATGTTAAACATGCCATA
Found at i:59581604 original size:19 final size:20
Alignment explanation
Indices: 59581561--59581606 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
59581551 ATGTTTAATT
59581561 ACTTTGGACTTTGGTCTTGG
1 ACTTTGGACTTTGGTCTTGG
59581581 A-TTTGGACTTT-GT-TTGGG
1 ACTTTGGACTTTGGTCTT-GG
59581599 ACTTTGGA
1 ACTTTGGA
59581607 TTTATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 5 0.21
19 16 0.67
20 1 0.04
ACGTcount: A:0.13, C:0.11, G:0.30, T:0.46
Consensus pattern (20 bp):
ACTTTGGACTTTGGTCTTGG
Found at i:59592567 original size:17 final size:18
Alignment explanation
Indices: 59592542--59592575 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59592532 ATATTTTACG
59592542 AATAAAAAAA-TTATAAT
1 AATAAAAAAATTTATAAT
*
59592559 AATATAAAAATTTATAA
1 AATAAAAAAATTTATAA
59592576 CTATATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAAAAATTTATAAT
Found at i:59592581 original size:18 final size:18
Alignment explanation
Indices: 59592542--59592575 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59592532 ATATTTTACG
59592542 AATA-AAAAAATTATAAT
1 AATATAAAAAATTATAAT
*
59592559 AATATAAAAATTTATAA
1 AATATAAAAAATTATAA
59592576 CTATATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATAAAAAATTATAAT
Found at i:59602788 original size:34 final size:34
Alignment explanation
Indices: 59602745--59602813 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
59602735 TCAACTAGCA
* *
59602745 ATAGAGTAGATTAATTGTTTAGGTGTCTAGTGTG
1 ATAGAGTAGATTAATTGTTTACGTGTCCAGTGTG
*
59602779 ATAGAGTAGATTAGTTGTTTACGTGTCCAGTGTG
1 ATAGAGTAGATTAATTGTTTACGTGTCCAGTGTG
59602813 A
1 A
59602814 CCTTCACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.39
Consensus pattern (34 bp):
ATAGAGTAGATTAATTGTTTACGTGTCCAGTGTG
Found at i:59607285 original size:26 final size:26
Alignment explanation
Indices: 59607248--59607298 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
59607238 TAACCTAGTT
*
59607248 CTCAGTTGTCTCCAAAGATCACTTTG
1 CTCAGTTATCTCCAAAGATCACTTTG
*
59607274 CTCAGTTATCTCCAAAGATTACTTT
1 CTCAGTTATCTCCAAAGATCACTTT
59607299 ATAAATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
CTCAGTTATCTCCAAAGATCACTTTG
Found at i:59611080 original size:134 final size:133
Alignment explanation
Indices: 59610841--59611110 Score: 522
Period size: 134 Copynumber: 2.0 Consensus size: 133
59610831 CAAAAAAGCC
59610841 AATTAATGGATTTTATGGTTGTTTGCGTCAAGACTGATATTTCAAATTCAAAAAGTGTAGGAATG
1 AATTAATGGATTTTATGGTTGTTTGCGTCAAGACTGATATTTCAAATTCAAAAAGTGTAGGAATG
59610906 ATCAAATTGGTGAACATGAACTAAGTTTACAATTTTACGCATAGAACAATAATAATAAAATTTAA
66 ATCAAATTGGTGAACATGAACTAAGTTTACAATTTTACGCATAGAACAATAATAATAAAATTTAA
59610971 TCA
131 TCA
*
59610974 AATTAATGGATTTTATGGTTGTTTGTGTCAAGACTGATATTTCAAAATTCAAAAAGTGTAGGAAT
1 AATTAATGGATTTTATGGTTGTTTGCGTCAAGACTGATATTTC-AAATTCAAAAAGTGTAGGAAT
59611039 GATCAAATTGGTGAACATGAACTAAGTTTACAATTTTACGCATAGAACAATAATAATAAAATTTA
65 GATCAAATTGGTGAACATGAACTAAGTTTACAATTTTACGCATAGAACAATAATAATAAAATTTA
59611104 ATCA
130 ATCA
59611108 AAT
1 AAT
59611111 GAATTTAATT
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
133 42 0.31
134 93 0.69
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (133 bp):
AATTAATGGATTTTATGGTTGTTTGCGTCAAGACTGATATTTCAAATTCAAAAAGTGTAGGAATG
ATCAAATTGGTGAACATGAACTAAGTTTACAATTTTACGCATAGAACAATAATAATAAAATTTAA
TCA
Found at i:59611200 original size:29 final size:30
Alignment explanation
Indices: 59611142--59611201 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
59611132 GATTAGGATT
*
59611142 ACATTAAAGTTTGAAATTACAAGGACTAAA
1 ACATTAAAGTTTGAAAGTACAAGGACTAAA
* *
59611172 ACATT-AA-TTTGAAAAGTACAGGGATTAAA
1 ACATTAAAGTTTG-AAAGTACAAGGACTAAA
59611201 A
1 A
59611202 TTTACCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 17 0.65
30 5 0.19
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (30 bp):
ACATTAAAGTTTGAAAGTACAAGGACTAAA
Found at i:59615730 original size:3 final size:3
Alignment explanation
Indices: 59615722--59615795 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
59615712 GAGGGAACAT
59615722 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
59615770 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
59615796 TAGTGGTCGC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:59619382 original size:44 final size:42
Alignment explanation
Indices: 59619309--59619403 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 42
59619299 GGATCCGATA
* * * * *
59619309 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTCTGTTTTATG
1 TGTAAGACCACGTCTAGGACATCGACATCGTA--TCTGATTT-TG
*
59619353 TGTAAGACCATGTCTAGGACATCGACATCGTATCTGATTTTG
1 TGTAAGACCACGTCTAGGACATCGACATCGTATCTGATTTTG
59619395 TGTAAGACC
1 TGTAAGACC
59619404 CTATCTGGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 11 0.25
43 7 0.16
44 25 0.57
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACATCGACATCGTATCTGATTTTG
Found at i:59629154 original size:28 final size:28
Alignment explanation
Indices: 59629091--59629188 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
59629081 ATATTAAGTC
*
59629091 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
59629118 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
59629146 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
59629174 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59629189 GTACAATTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.32
28 46 0.68
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59631529 original size:29 final size:29
Alignment explanation
Indices: 59631497--59631577 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
59631487 AATTTCACAT
*
59631497 ACCTGTATCTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
59631526 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * * *
59631555 ACATTTATATGCCCCGTTAGGCC
1 ACCTGTATATGGCCCATTAGGCC
59631578 TAGTCACATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:59631671 original size:17 final size:18
Alignment explanation
Indices: 59631649--59631695 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
59631639 TTGCCTATTA
59631649 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
59631666 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
*
59631684 TCTGGCCCATAT
1 T-GGGCCCATAT
59631696 GGCCAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:59631844 original size:16 final size:16
Alignment explanation
Indices: 59631802--59631844 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
59631792 GTAGCCAAAC
*
59631802 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTCGGCA
**
59631818 TTTCAATTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
59631834 TTTCGGCTTTT
1 TTTCAGCTTTT
59631845 GCTGATACAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:59638288 original size:47 final size:47
Alignment explanation
Indices: 59638234--59638427 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
59638224 TTAGGATTTT
** * *
59638234 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59638281 ATGTGATGAATGTGAACATGCATTTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
59638328 ATGTGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* ** * * *
59638375 ATGTGGTGAATAAGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
59638422 ATGTGA
1 ATGTGA
59638428 AAATGTATGA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:59638461 original size:94 final size:94
Alignment explanation
Indices: 59638269--59638564 Score: 248
Period size: 94 Copynumber: 3.1 Consensus size: 94
59638259 ATGAGATAAG
* * ** * * * *
59638269 GCCGAGTGGCCAATGTGATGAATGTGAACATGCATTTATGTGATAAGGCCGAATGGCCAATGTGA
1 GCCGAATGGCCAATGTGGTGAATAAGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
* * * * *
59638334 TGAATG--TGAG-CACGCATATGTGTGATAAG
66 -AAATGTATGAGAAATGTATATGTG-G-TAAA
59638363 GCCGAATGGCCAATGTGGTGAATAAGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 GCCGAATGGCCAATGTGGTGAATAAGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
*
59638428 AAATGTATGAGAAATTTATATGTGGTAAA
66 AAATGTATGAGAAATGTATATGTGGTAAA
* * * *
59638457 GCCGAATGGCTAATGT-G-AAATATGTATGAGATATGC--ATATGTGGTAAAGCTGAATGG-TCA
1 GCCGAATGGCCAATGTGGTGAATA---A-GA-ACATGCATATATGTGGTAAAGCCGAATGGCT-A
* *
59638517 ATGTGAAATATATATATGAGATATGTATATGTGGTAAA
60 ATGTG-AA-A-ATGTATGAGAAATGTATATGTGGTAAA
59638555 GCCGAATGGC
1 GCCGAATGGC
59638565 TAGTGTGAAA
Statistics
Matches: 169, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
92 4 0.02
93 5 0.03
94 76 0.45
95 32 0.19
96 12 0.07
97 6 0.04
98 34 0.20
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (94 bp):
GCCGAATGGCCAATGTGGTGAATAAGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
AAATGTATGAGAAATGTATATGTGGTAAA
Found at i:59638564 original size:98 final size:95
Alignment explanation
Indices: 59638398--59638580 Score: 278
Period size: 98 Copynumber: 1.9 Consensus size: 95
59638388 GAACATGCAT
* *
59638398 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAATGTATGAGAAATTTATATGTGGTAAAGCCGAA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATGAGAAATGTATATGTGGTAAAGCCGAA
59638463 TGGCTAATGTGAAATATGTATGAGATATGC
66 TGGCTAATGTGAAATATGTATGAGATATGC
* *
59638493 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-A-ATATATGAGAAATGTATATGTGGTAAAGC
*
59638557 CGAATGGCTAGTGTGAAATATGTA
62 CGAATGGCTAATGTGAAATATGTA
59638581 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
94 1 0.01
95 26 0.33
96 2 0.03
97 1 0.01
98 49 0.62
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (95 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATGAGAAATGTATATGTGGTAAAGCCGAA
TGGCTAATGTGAAATATGTATGAGATATGC
Found at i:59638596 original size:50 final size:48
Alignment explanation
Indices: 59638397--59638580 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
59638387 AGAACATGCA
* *
59638397 TATATGTGGTAAAGCCGAATGGCTAATGTGAAA-ATGTATGAGAAATT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
59638444 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
59638492 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
59638542 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
59638581 GGCGATGTGC
Statistics
Matches: 123, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
47 34 0.28
48 44 0.36
49 4 0.03
50 40 0.33
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:59638834 original size:37 final size:37
Alignment explanation
Indices: 59638726--59638834 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
59638716 GGAAATATAT
*
59638726 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
59638763 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
59638800 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
59638835 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:59644872 original size:43 final size:43
Alignment explanation
Indices: 59644824--59644943 Score: 204
Period size: 43 Copynumber: 2.8 Consensus size: 43
59644814 CCGGCATTAC
*
59644824 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
59644867 GCCTGCTAGGCACGAATGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
59644910 GCCTGCTAGGCACGAAGGCCCGAATATACATCAC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCAC
59644944 TAACATTCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:59645160 original size:38 final size:38
Alignment explanation
Indices: 59645076--59645176 Score: 121
Period size: 38 Copynumber: 2.7 Consensus size: 38
59645066 GGCATGAAGG
* * * * *
59645076 CCCGAATATAATACCATCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
59645114 CCTTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
59645152 CCCGGATATTTTACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGC
59645177 TTATGGGTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:59650045 original size:40 final size:40
Alignment explanation
Indices: 59649990--59650114 Score: 191
Period size: 40 Copynumber: 3.1 Consensus size: 40
59649980 ACCGGGTACA
*
59649990 ATTCCAACATATAGCCTGCGGGTCTTTAAGCCCGGATAAC
1 ATTCCAACATATAGCCTGCGGGTTTTTAAGCCCGGATAAC
*
59650030 ATTCCAGCATATAGCCTGCGGGTTTTTAAGCCCGGAT-AC
1 ATTCCAACATATAGCCTGCGGGTTTTTAAGCCCGGATAAC
*
59650069 AATTCCAACACGA-AGCCTGCGGGTTTTTAAGCCCGGATAAC
1 -ATTCCAACA-TATAGCCTGCGGGTTTTTAAGCCCGGATAAC
59650110 ATTCC
1 ATTCC
59650115 TCAATATCAT
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
39 2 0.03
40 73 0.94
41 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ATTCCAACATATAGCCTGCGGGTTTTTAAGCCCGGATAAC
Found at i:59656491 original size:50 final size:49
Alignment explanation
Indices: 59656379--59656506 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
59656369 TCCATCAAGT
* *
59656379 CGATGCCATGTCCCAGACATGGTCTTATACTAACTATCGAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCCAGGC
* * * * *
59656428 CGACGCCATGTCCCATACATGGTCTTACACTAGCTCTC-ACATATCCATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGA-A-ATCCAGGC
59656478 CGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
59656507 TTGACACCTC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 1 0.01
49 34 0.50
50 33 0.49
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCCAGGC
Found at i:59656639 original size:46 final size:44
Alignment explanation
Indices: 59656525--59656739 Score: 150
Period size: 46 Copynumber: 4.7 Consensus size: 44
59656515 TCTATACGTT
* * * *
59656525 CCGATGCCATGTCCTAGACATGGTCTTACACTGACACCTC-TCGT-AG
1 CCGATG-CATGTCCCAGA-AT-GTCTTACACTGGC-TCTCATCATGAG
* * *
59656571 CTGATGCATCTCCTAGACATGTCTTACACTGGCT-TACATCATGAGG
1 CCGATGCATGTCCCAGA-ATGTCTTACACTGGCTCT-CATCATGA-G
* * * * *
59656617 CCGATGCATGTCTCAGAGATGTCTTACACTAGCTGTCGTC-TCAATG
1 CCGATGCATGTCCCAGA-ATGTCTTACACTGGCTCTCATCAT-GA-G
* *
59656663 CCGATGCCATTTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAG
1 CCGATG-CATGTCCCAGA-AT-GTCTTACACTGGCTCTCATCATG-AG
59656711 CCGATGCATGTCCCAGAATGTCTTACACT
1 CCGATGCATGTCCCAGAATGTCTTACACT
59656740 AGCAGAAAAA
Statistics
Matches: 136, Mismatches: 23, Indels: 21
0.76 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 15 0.11
45 25 0.18
46 47 0.35
47 22 0.16
48 23 0.17
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
CCGATGCATGTCCCAGAATGTCTTACACTGGCTCTCATCATGAG
Found at i:59656692 original size:48 final size:47
Alignment explanation
Indices: 59656334--59656742 Score: 213
Period size: 48 Copynumber: 8.7 Consensus size: 47
59656324 TATAATGCTA
* ** *
59656334 ATGCCATGTCCCAGACATGGTCTTACA-TTGGATCATCCATCAA-GTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTCAT-C-TCAATGCCG
* * ** * *
59656381 ATGCCATGTCCCAGACATGGTCTTATACTAACTATCGAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-TC-ATCTCAATGCCG
* * * *
59656430 ACGCCATGTCCCATACATGGTCTTACACTAGCTCTCACATATCCATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-T--CATCTCAATGCCG
* * * *
59656480 ATGCCATGTCCCAGACATGGTCTTACA-TTG--ACACCTCTATACGTTCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTCATCTC-A-A--TGCCG
* * * * *
59656528 ATGCCATGTCCTAGACATGGTCTTACACT-GAC-ACCTCTC-GTAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTTCATCTCAAT-GCCG
* * * * *
59656574 ATG-CATCTCCTAGACAT-GTCTTACACTGGCTTACATCAT-GAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTT-CATC-TCAATGCCG
* * *
59656620 ATG-CATGTCTCAGAGAT-GTCTTACACTAGCTGTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-TCATCTCAATGCCG
* * * **
59656666 ATGCCATTTCCCAGACATGGTCTTACACTGGCTCTCATAATGTA-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-TCAT-CTCAATGCCG
59656714 ATG-CATGTCCCAGA-AT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
59656743 AGAAAAATAA
Statistics
Matches: 282, Mismatches: 56, Indels: 50
0.73 0.14 0.13
Matches are distributed among these distances:
44 15 0.05
45 28 0.10
46 51 0.18
47 49 0.17
48 58 0.21
49 40 0.14
50 40 0.14
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTTCATCTCAATGCCG
Found at i:59659485 original size:42 final size:42
Alignment explanation
Indices: 59659426--59659589 Score: 179
Period size: 42 Copynumber: 3.9 Consensus size: 42
59659416 TTAGGGTTAC
*
59659426 TGAGATTACGTGTAAGACCATATCTGGGATATGACATC-ATGA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAAT-A
* *
59659468 TGAGACTT-CGTGTAAGACCATATTTGAGATATGGCATCAATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGCATCAATA
** * * * * *
59659510 TGAGATTTTGTGTAAGACTATAGCTGGGCTATTGGCATCGACA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATA
* *
59659553 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
59659590 TGGTATGGTA
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 61 0.61
43 37 0.37
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:59663771 original size:40 final size:40
Alignment explanation
Indices: 59663739--59664046 Score: 420
Period size: 40 Copynumber: 7.7 Consensus size: 40
59663729 CCAGCATGAT
* * * *
59663739 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
59663779 TGCACTTCCGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
59663819 TGCTATTCGGAACTTAGTCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
59663859 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
59663899 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
59663939 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
59663979 TGCTCTTCAGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
59664019 TGCTCTTCGGGAATTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
59664047 GTCGAGACCT
Statistics
Matches: 236, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
39 4 0.02
40 232 0.98
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:59664169 original size:38 final size:38
Alignment explanation
Indices: 59664100--59664174 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
59664090 GAATTTTAAT
*
59664100 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
59664138 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
59664175 AACTAGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:59666433 original size:49 final size:49
Alignment explanation
Indices: 59666308--59666814 Score: 860
Period size: 49 Copynumber: 10.6 Consensus size: 49
59666298 CCCTTCGGGA
* * * * *
59666308 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59666354 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666402 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666451 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666500 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666549 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666596 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666645 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666694 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666741 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59666788 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
59666815 TATTCAAATA
Statistics
Matches: 446, Mismatches: 7, Indels: 15
0.95 0.01 0.03
Matches are distributed among these distances:
46 3 0.01
47 200 0.45
48 2 0.00
49 241 0.54
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59666573 original size:145 final size:143
Alignment explanation
Indices: 59666308--59666814 Score: 862
Period size: 145 Copynumber: 3.5 Consensus size: 143
59666298 CCCTTCGGGA
* * * * * *
59666308 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
59666370 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
59666435 ACATCGGCCATTAGGC
128 ACATCGGCCATTAGGC
59666451 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
59666516 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
59666581 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
59666596 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
59666661 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
59666726 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
59666741 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59666804 ACTTTCACATT
66 ACTTTCACATT
59666815 TATTCAAATA
Statistics
Matches: 353, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
141 19 0.05
143 57 0.16
144 1 0.00
145 227 0.64
146 2 0.01
147 47 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:59690822 original size:40 final size:40
Alignment explanation
Indices: 59690752--59690957 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
59690742 AAATCACGTA
* * * *
59690752 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATG
* *
59690791 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGTACAAATG
*
59690831 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATG
*
59690871 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATG
**
59690911 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTACAAATG
1 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGTACAAATG
59690951 CCTTCGG
1 CCTTCGG
59690958 ATCTTAGTCC
Statistics
Matches: 149, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 15 0.10
40 131 0.88
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATG
Found at i:59690958 original size:40 final size:40
Alignment explanation
Indices: 59690778--59691007 Score: 279
Period size: 40 Copynumber: 5.8 Consensus size: 40
59690768 GGATATAGCT
* *
59690778 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
59690818 ACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
59690858 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
59690898 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
59690938 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-A
* * *
59690979 CCTAGCACAAA-GCCTTCGGGACTTAGCCC
1 ACTCGTACAAATGCCTTCGGGACTTAGCCC
59691008 AGACATCATT
Statistics
Matches: 173, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 156 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:59690970 original size:80 final size:79
Alignment explanation
Indices: 59690752--59691003 Score: 271
Period size: 80 Copynumber: 3.2 Consensus size: 79
59690742 AAATCACGTA
* * * *
59690752 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTAT
1 CCTTCGG-ACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-T
*
59690814 AGTAACTCGTACAAATG
63 AGTAACTCGCACAAATG
* *
59690831 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTC-GGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAG
59690896 TAACTCGCACAAATG
65 TAACTCGCACAAATG
** * * *
59690911 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGA-CTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTA
* *
59690975 GTCACCTAGCACAAA-G
64 GT-AACTCGCACAAATG
59690991 CCTTCGGGACTTA
1 CCTTC-GGACTTA
59691004 GCCCAGACAT
Statistics
Matches: 149, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
79 17 0.11
80 117 0.79
81 15 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
CCTTCGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
AACTCGCACAAATG
Found at i:59693391 original size:21 final size:22
Alignment explanation
Indices: 59693366--59693426 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
59693356 TAAACAATAG
*
59693366 AAATAAAAATAACC-AAAACAT
1 AAATAAAAAGAACCAAAAACAT
*
59693387 AAATAAAAAGGACCAAGAAAACAT
1 AAATAAAAAGAACC-A-AAAACAT
*
59693411 AAATAAAAAGGACCAA
1 AAATAAAAAGAACCAA
59693427 GAAAAACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 12 0.34
22 1 0.03
23 1 0.03
24 21 0.60
ACGTcount: A:0.69, C:0.13, G:0.08, T:0.10
Consensus pattern (22 bp):
AAATAAAAAGAACCAAAAACAT
Done.