Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 24 of 50
Found at i:10783475 original size:28 final size:27
Alignment explanation
Indices: 10783444--10783496 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10783434 TTTGGAGTAA
*
10783444 AAGGGTAAAATGGTAATTTTGCCACCCC
1 AAGGGCAAAATGGTAATTTT-CCACCCC
*
10783472 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
10783497 ACCAGGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCCC
Found at i:10787903 original size:34 final size:34
Alignment explanation
Indices: 10787860--10787929 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
10787850 AACAAAGTAT
*
10787860 GTCATTCCCCATA-CAAGATGACCTGGTGTCTCAA
1 GTCATTCCCCATACCAA-ATGACCTGGTCTCTCAA
10787894 GTCATTCCCCATACCAAATGACCTGGTCTCTCAA
1 GTCATTCCCCATACCAAATGACCTGGTCTCTCAA
10787928 GT
1 GT
10787930 TTGAGCACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (34 bp):
GTCATTCCCCATACCAAATGACCTGGTCTCTCAA
Found at i:10791328 original size:32 final size:32
Alignment explanation
Indices: 10791291--10791353 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
10791281 TTTAAATCTA
* * *
10791291 AATAACCAAACACTAATATTTCAAACAACTTG
1 AATAACCAAAAACAAATATATCAAACAACTTG
10791323 AATAACCAAAAACAAATATATCAAACAACTT
1 AATAACCAAAAACAAATATATCAAACAACTT
10791354 ATAAGATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.21, G:0.02, T:0.22
Consensus pattern (32 bp):
AATAACCAAAAACAAATATATCAAACAACTTG
Found at i:10793069 original size:23 final size:23
Alignment explanation
Indices: 10793025--10793070 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10793015 CTATGCTTCT
*
10793025 GATTTCTCTTTCATGCATTTTCA
1 GATTTCTCTTTCATGCACTTTCA
* *
10793048 GATTTCTCTTTCTTGCGCTTTCA
1 GATTTCTCTTTCATGCACTTTCA
10793071 AAACACCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.11, T:0.52
Consensus pattern (23 bp):
GATTTCTCTTTCATGCACTTTCA
Found at i:10793494 original size:28 final size:28
Alignment explanation
Indices: 10793444--10793616 Score: 101
Period size: 28 Copynumber: 6.2 Consensus size: 28
10793434 CATTAAAGTA
* * *
10793444 TAACAA-AATGTTTTTGAATATGGCGTG
1 TAACAATAATATTTTTCAACATGGCGTG
10793471 TAACAATAATATTTTTCAACATGGCGTG
1 TAACAATAATATTTTTCAACATGGCGTG
* *
10793499 TAACAGCAGTATTTTTTTTTTCAACATGGCGTG
1 TAACA--A-TA--ATATTTTTCAACATGGCGTG
**
10793532 TAACAA-CCT-TTTTT-AATCATGGCGTG
1 TAACAATAATATTTTTCAA-CATGGCGTG
* ** *
10793558 T---AAT-ATGTTTTTGTACATGGCATG
1 TAACAATAATATTTTTCAACATGGCGTG
* * *
10793582 TAACAACAATATTTTTTTAACATGGAGTG
1 TAACAATAATA-TTTTTCAACATGGCGTG
10793611 TAACAA
1 TAACAA
10793617 CCTAACCATG
Statistics
Matches: 115, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.03
24 14 0.12
25 3 0.03
26 15 0.13
27 9 0.08
28 25 0.22
29 19 0.17
30 1 0.01
31 3 0.03
33 23 0.20
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (28 bp):
TAACAATAATATTTTTCAACATGGCGTG
Found at i:10793569 original size:26 final size:26
Alignment explanation
Indices: 10793513--10793617 Score: 81
Period size: 29 Copynumber: 4.0 Consensus size: 26
10793503 AGCAGTATTT
10793513 TTTTTTTCAACATGGCGTGTAACAAC
1 TTTTTTTCAACATGGCGTGTAACAAC
* *
10793539 CTTTTTT-AATCATGGCGTGTAA-TA-
1 TTTTTTTCAA-CATGGCGTGTAACAAC
* ** *
10793563 TGTTTTTGTACATGGCATGTAACAAC
1 TTTTTTTCAACATGGCGTGTAACAAC
* *
10793589 AATATTTTTTTAACATGGAGTGTAACAAC
1 --T-TTTTTTCAACATGGCGTGTAACAAC
10793618 CTAACCATGG
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
24 16 0.27
25 5 0.08
26 18 0.30
28 1 0.02
29 20 0.33
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (26 bp):
TTTTTTTCAACATGGCGTGTAACAAC
Found at i:10793650 original size:24 final size:24
Alignment explanation
Indices: 10793623--10793845 Score: 256
Period size: 24 Copynumber: 9.4 Consensus size: 24
10793613 ACAACCTAAC
*
10793623 CATGGCGTGTCACATGTTTTTGTA
1 CATGGCGTGTCACATGTTTCTGTA
* *
10793647 CATGGTGTGTCACATGTTTCTATA
1 CATGGCGTGTCACATGTTTCTGTA
* *
10793671 CATGACGTGTCATATGTTTCTGTA
1 CATGGCGTGTCACATGTTTCTGTA
*
10793695 CATGGCGTGTCACATGTTTTTGTA
1 CATGGCGTGTCACATGTTTCTGTA
** * ** *
10793719 CATGATGTGTAACA---ACCT-AA
1 CATGGCGTGTCACATGTTTCTGTA
*
10793739 CCATGGCGTGTCACATGTTTTTGTA
1 -CATGGCGTGTCACATGTTTCTGTA
*
10793764 CATGGCGTGTCACATGTTTTTGTA
1 CATGGCGTGTCACATGTTTCTGTA
*
10793788 CATGGCGTGTCACATGTTTCTATA
1 CATGGCGTGTCACATGTTTCTGTA
*
10793812 CATGGCGTGTCACATGTTTCTATA
1 CATGGCGTGTCACATGTTTCTGTA
*
10793836 CATGGTGTGT
1 CATGGCGTGT
10793846 AACAACCTAA
Statistics
Matches: 167, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
20 1 0.01
21 12 0.07
24 153 0.92
25 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (24 bp):
CATGGCGTGTCACATGTTTCTGTA
Found at i:10793737 original size:117 final size:117
Alignment explanation
Indices: 10793541--10793914 Score: 491
Period size: 117 Copynumber: 3.2 Consensus size: 117
10793531 GTAACAACCT
* * * * *
10793541 TTTTTA-ATCATGGCGTGTAATATGTTTTTGTACATGGCATGTAACAACAATATTTTTTTAACAT
1 TTTTTATA-CATGGCGTGTCATATGTTTCTGTACATGGCGTGT--C-AC-ATGTTTTTAT-ACAT
*
10793605 GGA-GTGTAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGTGTGTCACATG
60 -GATGTGTAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATG
* * *
10793663 TTTCTATACATGACGTGTCATATGTTTCTGTACATGGCGTGTCACATGTTTTTGTACATGATGTG
1 TTTTTATACATGGCGTGTCATATGTTTCTGTACATGGCGTGTCACATGTTTTTATACATGATGTG
10793728 TAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATG
66 TAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATG
* * * * *
10793780 TTTTTGTACATGGCGTGTCACATGTTTCTATACATGGCGTGTCACATGTTTCTATACATGGTGTG
1 TTTTTATACATGGCGTGTCATATGTTTCTGTACATGGCGTGTCACATGTTTTTATACATGATGTG
* ** * *
10793845 TAACAACCTAACAATAACGTGCCACATATTTTTGTACATGGCGTGTCACATG
66 TAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATG
*
10793897 TTTTTACACATGGCGTGT
1 TTTTTATACATGGCGTGT
10793915 AACAACCTAA
Statistics
Matches: 227, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
116 2 0.01
117 178 0.78
118 8 0.04
119 2 0.01
120 1 0.00
122 35 0.15
123 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (117 bp):
TTTTTATACATGGCGTGTCATATGTTTCTGTACATGGCGTGTCACATGTTTTTATACATGATGTG
TAACAACCTAACCATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATG
Found at i:10793757 original size:93 final size:93
Alignment explanation
Indices: 10793647--10793815 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
10793637 TGTTTTTGTA
* *
10793647 CATGGTGTGTCACATGTTTCTATACATGACGTGTCATATGTTTCTGTACATGGCGTGTCACATGT
1 CATGGCGTGTCACATGTTTCTATACATGACGTGTCACATGTTTCTGTACATGGCGTGTCACATGT
* *
10793712 TTTTGTACATGATGTGTAACAACCTAAC
66 TTCTATACATGATGTGTAACAACCTAAC
* * * *
10793740 CATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATGTTTTTGTACATGGCGTGTCACATGT
1 CATGGCGTGTCACATGTTTCTATACATGACGTGTCACATGTTTCTGTACATGGCGTGTCACATGT
10793805 TTCTATACATG
66 TTCTATACATG
10793816 GCGTGTCACA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (93 bp):
CATGGCGTGTCACATGTTTCTATACATGACGTGTCACATGTTTCTGTACATGGCGTGTCACATGT
TTCTATACATGATGTGTAACAACCTAAC
Found at i:10793894 original size:24 final size:24
Alignment explanation
Indices: 10793868--10793961 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 24
10793858 ATAACGTGCC
* *
10793868 ACATATTTTTGTACATGGCGTGTC
1 ACATATTTTTATACATGGCGTGTA
* *
10793892 ACATGTTTTTACACATGGCGTGTA
1 ACATATTTTTATACATGGCGTGTA
** *
10793916 ACA-A-CCTAAT-CATGGCGTGTA
1 ACATATTTTTATACATGGCGTGTA
* * *
10793937 ACATATTTTTGTACATAGCATGTA
1 ACATATTTTTATACATGGCGTGTA
10793961 A
1 A
10793962 TTTCATTAAG
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
21 14 0.27
22 3 0.06
23 2 0.04
24 33 0.63
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (24 bp):
ACATATTTTTATACATGGCGTGTA
Found at i:10793899 original size:69 final size:69
Alignment explanation
Indices: 10793810--10793952 Score: 207
Period size: 69 Copynumber: 2.1 Consensus size: 69
10793800 CATGTTTCTA
* * *
10793810 TACATGGCGTGTCACATGTTTCTATACATGGTGTGTAACAACCTAA-CAATAACGTGCCACATAT
1 TACATGGCGTGTCACATGTTTCTACACATGGCGTGTAACAACCTAATC-ATAACGTGCAACATAT
10793874 TTTTG
65 TTTTG
* ** *
10793879 TACATGGCGTGTCACATGTTTTTACACATGGCGTGTAACAACCTAATCATGGCGTGTAACATATT
1 TACATGGCGTGTCACATGTTTCTACACATGGCGTGTAACAACCTAATCATAACGTGCAACATATT
10793944 TTTG
66 TTTG
10793948 TACAT
1 TACAT
10793953 AGCATGTAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 65 0.98
70 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (69 bp):
TACATGGCGTGTCACATGTTTCTACACATGGCGTGTAACAACCTAATCATAACGTGCAACATATT
TTTG
Found at i:10796284 original size:21 final size:21
Alignment explanation
Indices: 10796253--10796299 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
10796243 TTTTGACCCC
10796253 ATTTG-ACTTATTGGAGTATA
1 ATTTGAACTTATTGGAGTATA
*
10796273 ATTTGAACTTATTGGAGTATG
1 ATTTGAACTTATTGGAGTATA
10796294 ATTTGA
1 ATTTGA
10796300 GATTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (21 bp):
ATTTGAACTTATTGGAGTATA
Found at i:10845526 original size:31 final size:31
Alignment explanation
Indices: 10845488--10845549 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10845478 ATGCCTTGTT
10845488 GAAAGTGTTGAATCAAGCATATGTGGCTCAC
1 GAAAGTGTTGAATCAAGCATATGTGGCTCAC
10845519 GAAAGTGTTGAATCAAGCATATGTGGCTCAC
1 GAAAGTGTTGAATCAAGCATATGTGGCTCAC
10845550 AATATATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (31 bp):
GAAAGTGTTGAATCAAGCATATGTGGCTCAC
Found at i:10848648 original size:15 final size:15
Alignment explanation
Indices: 10848618--10848658 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10848608 GCCAAGCCTC
10848618 CTTTCT-CTTTTCTT
1 CTTTCTCCTTTTCTT
10848632 CTTTCTCCTTTAT-TT
1 CTTTCTCCTTT-TCTT
10848647 CTTTCTCTCTTT
1 CTTTCTC-CTTT
10848659 GCCTCTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTTCTCCTTTTCTT
Found at i:10852359 original size:39 final size:40
Alignment explanation
Indices: 10852304--10852398 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
10852294 CGAGATTGAA
* * *
10852304 TCTCGCTGCAGTGAAATT-TCTACCCAG-AAACAGAATGTT
1 TCTCGCTGCAGCGAAATTGT-AACCCAGAAAACAGAAAGTT
10852343 TCTCGCTGCAGCGAAATTGTAACCCAGAAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTGTAACCCAGAAAACAGAAAGTT
10852383 TCTCGCTGCAGCGAAA
1 TCTCGCTGCAGCGAAA
10852399 ATGCATTTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
39 23 0.45
40 28 0.55
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (40 bp):
TCTCGCTGCAGCGAAATTGTAACCCAGAAAACAGAAAGTT
Found at i:10852712 original size:12 final size:12
Alignment explanation
Indices: 10852695--10852719 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10852685 ACATATTTAC
10852695 ATATACATATAT
1 ATATACATATAT
10852707 ATATACATATAT
1 ATATACATATAT
10852719 A
1 A
10852720 CCCATCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATACATATAT
Found at i:10852813 original size:43 final size:43
Alignment explanation
Indices: 10852765--10852874 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
10852755 TCACCAACTC
** **
10852765 ATGCGCACTCCCTACTCGCACAT-GGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-AGGTCATC-CTCGACTT
*
10852808 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAATCAGGTCATCCTCGACTT
*
10852851 ATGCGCACTCCCTACTCCCACATA
1 ATGCGCACTCCCTACTCGCACATA
10852875 GCTGAGTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
42 1 0.02
43 57 0.97
44 1 0.02
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCAGGTCATCCTCGACTT
Found at i:10853704 original size:19 final size:20
Alignment explanation
Indices: 10853670--10853707 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
10853660 GAAGAAGACC
10853670 AGCTGCTGGAAAATTCAAGA
1 AGCTGCTGGAAAATTCAAGA
10853690 AGCTGCTGG-AAATTCAAG
1 AGCTGCTGGAAAATTCAAG
10853708 GTATTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
AGCTGCTGGAAAATTCAAGA
Found at i:10856816 original size:55 final size:56
Alignment explanation
Indices: 10856715--10856819 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 56
10856705 ATGTTATGCT
* *
10856715 TAAAAAGAAAAAAAAGAGTTCAAGGTGAAAACCTGAAAAGGTAGTTTGAATTCAAA
1 TAAAAAGAAAAAAAAGAGTTCAAGGTGAAAACCTCAAAAGGCAGTTTGAATTCAAA
*
10856771 TAAAAA-AAAAGAAAAG-GTTCAAGGTGAAAGCC-CAAAATGGCAGTTTGAA
1 TAAAAAGAAAA-AAAAGAGTTCAAGGTGAAAACCTCAAAA-GGCAGTTTGAA
10856820 CCCAAAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
54 4 0.09
55 29 0.66
56 11 0.25
ACGTcount: A:0.52, C:0.09, G:0.21, T:0.18
Consensus pattern (56 bp):
TAAAAAGAAAAAAAAGAGTTCAAGGTGAAAACCTCAAAAGGCAGTTTGAATTCAAA
Found at i:10857581 original size:31 final size:30
Alignment explanation
Indices: 10857543--10857727 Score: 144
Period size: 31 Copynumber: 6.1 Consensus size: 30
10857533 TGGTGGAGGA
10857543 ATTCTTAAGATATTAAATCCTCGATAGAAGG
1 ATTCTTAAGATATTAAA-CCTCGATAGAAGG
* *
10857574 ATTCTTAAGATATTGAAACCTCGATAAAAGA
1 ATTCTTAAGATATT-AAACCTCGATAGAAGG
** *
10857605 ATAT-TTAAG-T-TGGAACCTCGAT-GGAGG
1 AT-TCTTAAGATATTAAACCTCGATAGAAGG
* * * * * *
10857632 AATTCTTAAGATGTTTGAACCTTGGTGGAAGA
1 -ATTCTTAAGAT-ATTAAACCTCGATAGAAGG
*
10857664 ATTCTTAGGATATTAAATCCTCGATAGAAGG
1 ATTCTTAAGATATTAAA-CCTCGATAGAAGG
* * *
10857695 ATTCTTATGATATTAGAACCTCGGTAGAGGG
1 ATTCTTAAGATATTA-AACCTCGATAGAAGG
10857726 AT
1 AT
10857728 ATTGGAACCT
Statistics
Matches: 122, Mismatches: 22, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
27 3 0.02
28 16 0.13
29 2 0.02
30 5 0.04
31 87 0.71
32 9 0.07
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (30 bp):
ATTCTTAAGATATTAAACCTCGATAGAAGG
Found at i:10857729 original size:22 final size:22
Alignment explanation
Indices: 10857703--10857746 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10857693 GGATTCTTAT
10857703 GATATTAGAACCTCGGTAGAGG
1 GATATTAGAACCTCGGTAGAGG
*
10857725 GATATTGGAACCTCGGTAGAGG
1 GATATTAGAACCTCGGTAGAGG
10857747 AATTCTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (22 bp):
GATATTAGAACCTCGGTAGAGG
Found at i:10857752 original size:53 final size:54
Alignment explanation
Indices: 10857682--10857822 Score: 216
Period size: 53 Copynumber: 2.7 Consensus size: 54
10857672 GATATTAAAT
*
10857682 CCTCGATAGAAGG-ATTCTTATGATATTAGAACCTCGGTAGAGGGATATTGGAA
1 CCTCGATAGAAGGAATTCTTAAGATATTAGAACCTCGGTAGAGGGATATTGGAA
* * *
10857735 CCTCGGTAG-AGGAATTCTTAAGATATTAGAACCTTGGTGGAGGGATATTGGAA
1 CCTCGATAGAAGGAATTCTTAAGATATTAGAACCTCGGTAGAGGGATATTGGAA
*
10857788 TCTCGAT-GAAGGAATTCTTAAGATATTAGAACCTC
1 CCTCGATAGAAGGAATTCTTAAGATATTAGAACCTC
10857823 AATGGAGGGA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 4 0.05
53 75 0.95
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (54 bp):
CCTCGATAGAAGGAATTCTTAAGATATTAGAACCTCGGTAGAGGGATATTGGAA
Found at i:10857840 original size:31 final size:31
Alignment explanation
Indices: 10857778--10857840 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
10857768 TTGGTGGAGG
* * *
10857778 GATATTGGAATCTCGATGAAGGAATTCTTAA
1 GATATTAGAACCTCAATGAAGGAATTCTTAA
* * *
10857809 GATATTAGAACCTCAATGGAGGGATTTTTAA
1 GATATTAGAACCTCAATGAAGGAATTCTTAA
10857840 G
1 G
10857841 TTATAGAGCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (31 bp):
GATATTAGAACCTCAATGAAGGAATTCTTAA
Found at i:10858251 original size:15 final size:14
Alignment explanation
Indices: 10858231--10858282 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
10858221 TAGTCCTATA
10858231 TTTTATTTAATCTAG
1 TTTTATTTAAT-TAG
*
10858246 TTTTATTTATTTTA-
1 TTTTATTTA-ATTAG
*
10858260 TTTTATTTCATTAG
1 TTTTATTTAATTAG
*
10858274 ATTTATTTA
1 TTTTATTTA
10858283 TTTTGTTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 3 0.10
14 15 0.50
15 11 0.37
16 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTTATTTAATTAG
Found at i:10858284 original size:28 final size:29
Alignment explanation
Indices: 10858229--10858295 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
10858219 ATTAGTCCTA
*
10858229 TATTTTATTTAATCTAGTTTTATTTATTT
1 TATTTTATTTAATCTAGATTTATTTATTT
*
10858258 TATTTTATTTCAT-TAGATTTATTTATTT
1 TATTTTATTTAATCTAGATTTATTTATTT
* *
10858286 TGTTCTATTT
1 TATTTTATTT
10858296 TATTTTGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (29 bp):
TATTTTATTTAATCTAGATTTATTTATTT
Found at i:10859342 original size:15 final size:15
Alignment explanation
Indices: 10859308--10859342 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10859298 TACTTTATTT
10859308 ATATTTATTTTTCTG
1 ATATTTATTTTTCTG
* *
10859323 TTATTTATTTTTTTG
1 ATATTTATTTTTCTG
10859338 ATATT
1 ATATT
10859343 AATGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (15 bp):
ATATTTATTTTTCTG
Found at i:10870349 original size:16 final size:16
Alignment explanation
Indices: 10870328--10870361 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10870318 ATCTAAAAAT
10870328 GTGCAAATATTCCACA
1 GTGCAAATATTCCACA
10870344 GTGCAAATATTCCACA
1 GTGCAAATATTCCACA
10870360 GT
1 GT
10870362 TTATTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (16 bp):
GTGCAAATATTCCACA
Found at i:10870863 original size:23 final size:23
Alignment explanation
Indices: 10870837--10870881 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10870827 AGCACTCTTT
10870837 CTTCTAATGA-AAG-TAGAAACAAG
1 CTTC-AATGAGAAGTTA-AAACAAG
10870860 CTTCAATGAGAAGTTAAAACAA
1 CTTCAATGAGAAGTTAAAACAA
10870882 CTTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
23 13 0.65
24 2 0.10
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (23 bp):
CTTCAATGAGAAGTTAAAACAAG
Found at i:10874144 original size:31 final size:32
Alignment explanation
Indices: 10874109--10874181 Score: 76
Period size: 36 Copynumber: 2.2 Consensus size: 32
10874099 TTTACCTATA
10874109 AATAAG-TCCTTCACTTGTAAAAATACACTTC
1 AATAAGTTCCTTCACTTGTAAAAATACACTTC
* * *
10874140 AATAAGATATTTCTTTCACTTGTAAAGATACACTTT
1 AATAAG----TTCCTTCACTTGTAAAAATACACTTC
10874176 AATAAG
1 AATAAG
10874182 ATATTTCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 6 0.18
36 28 0.82
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (32 bp):
AATAAGTTCCTTCACTTGTAAAAATACACTTC
Found at i:10874165 original size:36 final size:36
Alignment explanation
Indices: 10874118--10874190 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
10874108 AAATAAGTCC
10874118 TTCACTTGTAAAAATACACTTCAATAAGATATTTCT
1 TTCACTTGTAAAAATACACTTCAATAAGATATTTCT
* *
10874154 TTCACTTGTAAAGATACACTTTAATAAGATATTTCT
1 TTCACTTGTAAAAATACACTTCAATAAGATATTTCT
10874190 T
1 T
10874191 ACTCCCTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (36 bp):
TTCACTTGTAAAAATACACTTCAATAAGATATTTCT
Found at i:10874831 original size:17 final size:17
Alignment explanation
Indices: 10874809--10874842 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10874799 ACATATGAAA
10874809 CTAACTTTATATGATAT
1 CTAACTTTATATGATAT
10874826 CTAACTTTATATGATAT
1 CTAACTTTATATGATAT
10874843 ATATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CTAACTTTATATGATAT
Found at i:10884012 original size:35 final size:34
Alignment explanation
Indices: 10883977--10884064 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 34
10883967 TACTTGATTA
* *
10883977 AAATTGTTAATTAAGTTGTTGGGCTTAATTAATT
1 AAATTGTTAATTAAGTTATTGGGCCTAATTAATT
*
10884011 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTG-TTAATTAAGTTATTGGGCCTAATTAATT
*
10884046 AAATTAATTAATTAAGTTA
1 AAATT-GTTAATTAAGTTA
10884065 ACTGGGCTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
34 6 0.12
35 42 0.88
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (34 bp):
AAATTGTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:10897774 original size:36 final size:34
Alignment explanation
Indices: 10897728--10897795 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 34
10897718 TAGGCAAGTA
* *
10897728 ATTATTACAAAATAATTAGTTTTAATAGTTCTAGAT
1 ATTATGACAAAAGAA-TAG-TTTAATAGTTCTAGAT
10897764 ATTATGACAAAAGAATAGTTTAATAGTTCTAG
1 ATTATGACAAAAGAATAGTTTAATAGTTCTAG
10897796 GCAGTGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 14 0.47
35 3 0.10
36 13 0.43
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTATGACAAAAGAATAGTTTAATAGTTCTAGAT
Found at i:10897849 original size:38 final size:34
Alignment explanation
Indices: 10897728--10897847 Score: 116
Period size: 36 Copynumber: 3.4 Consensus size: 34
10897718 TAGGCAAGTA
*
10897728 ATTATTACAAAATAATTAGTTTTAATAGTTCTAGAT
1 ATTATTACAAAAGAATTAG-TTTAATAGTTCTAG-T
* *
10897764 ATTATGACAAAAGAA-TAGTTTAATAGTTCTAGGC
1 ATTATTACAAAAGAATTAGTTTAATAGTTCTA-GT
* * *
10897798 AGTGTTACAAAAAAGAATTAATTCTAATAGTTCTATGT
1 ATTATTAC--AAAAGAATTAGTT-TAATAGTTCTA-GT
10897836 ATTATTACAAAA
1 ATTATTACAAAA
10897848 AATATAAACT
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
34 18 0.26
35 4 0.06
36 24 0.35
37 4 0.06
38 18 0.26
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (34 bp):
ATTATTACAAAAGAATTAGTTTAATAGTTCTAGT
Found at i:10908096 original size:20 final size:19
Alignment explanation
Indices: 10908071--10908125 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
10908061 TGGTCTATGG
10908071 AATTGAATTAGTTAATTTAA
1 AATTGAATTAGTTAATTT-A
10908091 AATTGAA-TATGATTAATTTA
1 AATTGAATTA-G-TTAATTTA
*
10908111 AATT-AATTAATTAAT
1 AATTGAATTAGTTAAT
10908126 AAAATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 4 0.13
20 15 0.48
21 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
AATTGAATTAGTTAATTTA
Found at i:10909352 original size:20 final size:20
Alignment explanation
Indices: 10909329--10909389 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
10909319 ATCACCCAAG
10909329 CTCAACTTTCATAAATTCTT
1 CTCAACTTTCATAAATTCTT
10909349 CTCAACTTTCATAAATTCTT
1 CTCAACTTTCATAAATTCTT
*
10909369 CTCAACTTTCAAAAATTCTT
1 CTCAACTTTCATAAATTCTT
10909389 C
1 C
10909390 AACAATGGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (20 bp):
CTCAACTTTCATAAATTCTT
Found at i:10912836 original size:28 final size:27
Alignment explanation
Indices: 10912800--10912852 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10912790 ATATCCTGGT
*
10912800 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
10912827 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
10912853 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:10912920 original size:20 final size:20
Alignment explanation
Indices: 10912897--10912962 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
10912887 CTTCTAAACC
* *
10912897 TCAAATCATACTTCAATAAG
1 TCAAATTATACTCCAATAAG
10912917 TCAAATTATACTCCAATAAG
1 TCAAATTATACTCCAATAAG
10912937 TCAAATTATACTCCAATAAG
1 TCAAATTATACTCCAATAAG
10912957 TCAAAT
1 TCAAAT
10912963 GGGGCCAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (20 bp):
TCAAATTATACTCCAATAAG
Found at i:10925779 original size:17 final size:17
Alignment explanation
Indices: 10925757--10925792 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10925747 TCATCATTTT
10925757 ATAAAACCTCATCGTTA
1 ATAAAACCTCATCGTTA
10925774 ATAAAACCTCATCGTTA
1 ATAAAACCTCATCGTTA
10925791 AT
1 AT
10925793 CTGTGGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (17 bp):
ATAAAACCTCATCGTTA
Found at i:10928599 original size:3 final size:3
Alignment explanation
Indices: 10928591--10928617 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10928581 ATGGTCCCAG
10928591 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
10928618 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10929592 original size:21 final size:20
Alignment explanation
Indices: 10929550--10929597 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
10929540 TGTTGATAAA
*
10929550 TTTCTGTAATATTTATTTTC
1 TTTCTGTAATATTTATTATC
*
10929570 TTTTCTGTATTA-TTATATATC
1 -TTTCTGTAATATTTAT-TATC
10929591 TTTCTGT
1 TTTCTGT
10929598 GCCACCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTCTGTAATATTTATTATC
Found at i:10931036 original size:6 final size:6
Alignment explanation
Indices: 10931021--10931050 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10931011 AGCTCTTTGC
10931021 TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
10931051 CACCTCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:10931101 original size:4 final size:4
Alignment explanation
Indices: 10931092--10931118 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10931082 CTCAATTATA
10931092 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
10931119 CAAATTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:10934057 original size:2 final size:2
Alignment explanation
Indices: 10934050--10934078 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10934040 ATTTGTTTTG
10934050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10934079 AAACCTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10937464 original size:4 final size:4
Alignment explanation
Indices: 10937455--10937495 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
10937445 AGTATTAATA
10937455 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
10937496 CTATTGCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:10945519 original size:43 final size:43
Alignment explanation
Indices: 10945472--10945587 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
10945462 TCAGCTCATG
** * *
10945472 CGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATA
1 CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGCTTATA
* *
10945515 CGCACTCCCTACTCGCACATAACCGGGTCATCATCGGCTTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGCTTATA
* * * *
10945558 CGCACTTCCTACTCACACATAGCCGAGTCA
1 CGCACTCCCTACTCGCACATAACCGGGTCA
10945588 ATATCATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (43 bp):
CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGCTTATA
Found at i:10948380 original size:21 final size:21
Alignment explanation
Indices: 10948356--10948395 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10948346 CCTAGGTGCT
10948356 CATCTATCAATAGATTTTGAG
1 CATCTATCAATAGATTTTGAG
**
10948377 CATCTATTGATAGATTTTG
1 CATCTATCAATAGATTTTG
10948396 CTGCTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (21 bp):
CATCTATCAATAGATTTTGAG
Found at i:11025721 original size:50 final size:49
Alignment explanation
Indices: 11025637--11025825 Score: 272
Period size: 50 Copynumber: 3.8 Consensus size: 49
11025627 TACCATTTGA
* *
11025637 AAAAT-AATTTTGAAAAAGATAAACAACTCTTCATCTGAGGCTCCACCACTT
1 AAAATCAA-TTTG-AAAA-ATAAACAACTCCTCATCCGAGGCTCCACCACTT
* * *
11025688 CAAAATCAATTTGAAAAACAAACAACTCCTCATCCAAGGCTCTACCACTTT
1 -AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCTCCACCAC-TT
11025739 AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCTCCACCACCTT
1 AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCTCCACCA-CTT
11025789 AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAG
1 AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAG
11025826 TGATAATTCT
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
50 108 0.86
51 7 0.06
52 9 0.07
53 2 0.02
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (49 bp):
AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCTCCACCACTT
Found at i:11031514 original size:51 final size:51
Alignment explanation
Indices: 11031438--11032026 Score: 573
Period size: 50 Copynumber: 11.6 Consensus size: 51
11031428 GACACTAAGA
* * *
11031438 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCTTTATCCCAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * * *
11031489 CATAAATAACTTTAGAGTCAATTTGACAAATAAATAACTCCTCATACAAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
** * * * **
11031540 C-TTTACCACTTTAAAATCAATTTGAAAAATAAGGAACTCCTCATCCGAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
** * * * *
11031590 C-TCCACCACCTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * **
11031640 CATAAACAACTTTAGAGTCAATTTGAAAAGTAAACAACTCCTTATCTAAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * *
11031691 CATAAACAACTTTAGACTCAATTTGAAAGATAAACAATTCCTCATCTGA-G
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* *
11031741 CGTAAACAACTTTAGAGTCAATTTGACAAATAAACAACTCCTCATCCGA-G
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* *
11031791 CGTAAACAACTTTAGAGTCAATTTGACAAATAAACAACTCCTCATCCGAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * *
11031842 CATAAACAACTTTAAAGCCAATTTGACAAATAAACAACTCCTCATACGAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* ** * * * * * * **
11031893 -TTTTACCACTTTAAAATCAATTTGAAACATAAGCAACTCTTCATTTGAGG
1 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * *
11031943 C-TCTAA-AACTTTTA-AGAACAATTTTGAAAAATAAACAACTCTTCATCCAAGG
1 CAT-AAACAAC-TTTAGAG-TCAA-TTTGAAAAATAAACAACTCCTCATCCGAGG
* * * *
11031995 CTTAGACAACTTTAACAATCAATTTGAAAAAT
1 CATAAACAACTTT-AGAGTCAATTTGAAAAAT
11032027 GAGCAACATC
Statistics
Matches: 453, Mismatches: 74, Indels: 21
0.83 0.14 0.04
Matches are distributed among these distances:
50 220 0.49
51 184 0.41
52 40 0.09
53 8 0.02
54 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (51 bp):
CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGG
Found at i:11031652 original size:101 final size:102
Alignment explanation
Indices: 11031438--11032026 Score: 580
Period size: 101 Copynumber: 5.8 Consensus size: 102
11031428 GACACTAAGA
* * * * *
11031438 CATAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCTTTATCCCAGGCATAAATAACTTTA
1 CATAAACAACTTTAAAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTA
* * * * * *
11031503 GAGTCAATTTGACAAATAAATAACTCCTCATACAAGG
66 AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
** * * ** ** * *
11031540 C-TTTACCACTTTAAAATCAATTTGAAAAATAAGGAACTCCTCATCCGAGGC-TCCACCACCTTA
1 CATAAACAACTTTAAAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTA
11031603 AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
66 AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * **
11031640 CATAAACAACTTTAGAGTCAATTTGAAAAGTAAACAACTCCTTATCTAAGGCATAAACAACTTTA
1 CATAAACAACTTTAAAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTA
* * * * *
11031705 GACTCAATTTGAAAGATAAACAATTCCTCATCTGA-G
66 AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * *
11031741 CGTAAACAACTTTAGAGTCAATTTGACAAATAAACAACTCCTCATCCGA-GCGTAAACAACTTTA
1 CATAAACAACTTTAAAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTA
* * *
11031805 GAGTCAATTTGACAAATAAACAACTCCTCATCCGAGG
66 AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * * ** *
11031842 CATAAACAACTTTAAAGCCAATTTGACAAATAAACAACTCCTCATACGAGG-TTTTACCACTTTA
1 CATAAACAACTTTAAAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTA
* * * **
11031906 AAATCAATTTGAAACATAAGCAACTCTTCATTTGAGG
66 AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * * * * *
11031943 C-TCTAA-AACTTTTAAGAACAATTTTGAAAAATAAACAACTCTTCATCCAAGGCTTAGACAACT
1 CAT-AAACAACTTTAAAG-TCAA-TTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACT
11032006 TTAACAATCAATTTGAAAAAT
63 TTAA-AATCAATTTGAAAAAT
11032027 GAGCAACATC
Statistics
Matches: 398, Mismatches: 80, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
100 93 0.23
101 213 0.54
102 66 0.17
103 11 0.03
104 15 0.04
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (102 bp):
CATAAACAACTTTAAAGTCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTA
AAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
Found at i:11031904 original size:151 final size:148
Alignment explanation
Indices: 11031440--11032024 Score: 579
Period size: 151 Copynumber: 3.9 Consensus size: 148
11031430 CACTAAGACA
* * * * * * *
11031440 TAAACAACTTTAGAGTCAATTTGAAAAATAAACAACTCTTTATCCCAGGCATAAATAACTTTAGA
1 TAAACCACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTAGA
* * ** * *
11031505 GTCAATTTGACAAATAAATAACTCCTCATACAAGGC-TTTACCACTTTAAAATCAATTTGAAAAA
66 GTCAATTTGACAAATAAACAACTCCTCATCCAAGGCATAAACAACTTT-AAACCAATTTG-AAAA
**
11031569 TAAGGAACTCCTCATCCGAGG
129 TAAACAACTCCTCAT-CGAGG
** *
11031590 CTCCACCACCTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTAG
1 -TAAACCACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTAG
* * *
11031655 AGTCAATTTGA-AAAGTAAACAACTCCTTATCTAAGGCATAAACAACTTTAGACTCAATTTGAAA
65 AGTCAATTTGACAAA-TAAACAACTCCTCATCCAAGGCATAAACAACTTTAAAC-CAATTTGAAA
*
11031719 GATAAACAATTCCTCATCTGAGCG
128 -ATAAACAACTCCTCATC-GAG-G
* * * * *
11031743 TAAACAACTTTAGAGTCAATTTGACAAATAAACAACTCCTCATCCGA-GCGTAAACAACTTTAGA
1 TAAACCACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTAGA
*
11031807 GTCAATTTGACAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTAAAGCCAATTTGACAAA
66 GTCAATTTGACAAATAAACAACTCCTCATCCAAGGCATAAACAACTTTAAA-CCAATTTGA-AAA
11031872 TAAACAACTCCTCATACGAGG
129 TAAACAACTCCTCAT-CGAGG
** * * * ** *
11031893 TTTTACCACTTTAAAATCAATTTGAAACATAAGCAACTCTTCATTTGAGGC-TCTAA-AACTTTT
1 -TAAACCACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCAT-AAACAAC-TTT
* * * * * *
11031956 A-AGAACAATTTTGAAAAATAAACAACTCTTCATCCAAGGCTTAGACAACTTTAACAATCAATTT
63 AGAG-TCAA-TTTGACAAATAAACAACTCCTCATCCAAGGCATAAACAACTTT-A-AACCAATTT
11032020 GAAAA
124 GAAAA
11032025 ATGAGCAACA
Statistics
Matches: 362, Mismatches: 54, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
150 4 0.01
151 216 0.60
152 89 0.25
153 42 0.12
154 9 0.02
155 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (148 bp):
TAAACCACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGGCATAAACAACTTTAGA
GTCAATTTGACAAATAAACAACTCCTCATCCAAGGCATAAACAACTTTAAACCAATTTGAAAATA
AACAACTCCTCATCGAGG
Found at i:11032856 original size:9 final size:9
Alignment explanation
Indices: 11032839--11032885 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
11032829 CTTGAATCCC
*
11032839 TTTTCCTTT
1 TTTTTCTTT
11032848 TTTTTCTTT
1 TTTTTCTTT
11032857 TTTTTC--T
1 TTTTTCTTT
*
11032864 TTTCT-TTT
1 TTTTTCTTT
11032872 TTTTTCTTT
1 TTTTTCTTT
11032881 TTTTT
1 TTTTT
11032886 TAGGCATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 5 0.16
8 5 0.16
9 22 0.69
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11032858 original size:10 final size:10
Alignment explanation
Indices: 11032846--11032886 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
11032836 CCCTTTTCCT
*
11032846 TTTTTTTCTTT
1 TTTTTTT-TTC
11032857 TTTTTCTTTTC
1 TTTTT-TTTTC
11032868 TTTTTTTTTC
1 TTTTTTTTTC
11032878 TTTTTTTTT
1 TTTTTTTTT
11032887 AGGCATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 14 0.50
11 12 0.43
12 2 0.07
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:11032865 original size:24 final size:24
Alignment explanation
Indices: 11032838--11032885 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11032828 ACTTGAATCC
11032838 CTTTTCCTTTTTTTTCTTTTTTTT
1 CTTTTCCTTTTTTTTCTTTTTTTT
*
11032862 CTTTTCTTTTTTTTTCTTTTTTTT
1 CTTTTCCTTTTTTTTCTTTTTTTT
11032886 TAGGCATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (24 bp):
CTTTTCCTTTTTTTTCTTTTTTTT
Found at i:11032866 original size:15 final size:15
Alignment explanation
Indices: 11032848--11032886 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
11032838 CTTTTCCTTT
11032848 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTTC
11032863 -TTTTCTTTTTTTTTC
1 TTTTTC-TTTTTTTTC
11032878 TTTTT-TTTT
1 TTTTTCTTTT
11032887 AGGCATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.41
15 9 0.41
16 4 0.18
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:11039258 original size:20 final size:20
Alignment explanation
Indices: 11039233--11039278 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
11039223 TTTTGACCCC
11039233 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
11039253 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
11039273 ATTTGA
1 ATTTGA
11039279 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:11039354 original size:28 final size:27
Alignment explanation
Indices: 11039323--11039375 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
11039313 TTTGGAGTAT
*
11039323 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
11039351 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
11039376 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:11039381 original size:28 final size:28
Alignment explanation
Indices: 11039323--11039381 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
11039313 TTTGGAGTAT
* *
11039323 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
11039351 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
11039379 AGG
1 AGG
11039382 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:11042686 original size:42 final size:41
Alignment explanation
Indices: 11042630--11042737 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 41
11042620 CTCCCCACTA
* * *
11042630 GCACATGGCTGGGTCAGCATCAACTTATG-GACACTCCTACTC
1 GCACATAGCCGGGTCA-CATCAACGTATGCG-CACTCCTACTC
**
11042672 GCACATAGCCGGGTCATCATCGGCGTATGCGCACTCCTACTC
1 GCACATAGCCGGGTCA-CATCAACGTATGCGCACTCCTACTC
*
11042714 GCACATAGCGGGGTCCACATCAAC
1 GCACATAGCCGGGT-CACATCAAC
11042738 ATACGAAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 52 0.95
43 3 0.05
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.20
Consensus pattern (41 bp):
GCACATAGCCGGGTCACATCAACGTATGCGCACTCCTACTC
Found at i:11045420 original size:42 final size:42
Alignment explanation
Indices: 11045296--11045420 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
11045286 CATCTCATAT
** * * *
11045296 GCAACGGCTTATGCACACTCCCAC-CAGTACATAGCCGAGTCA
1 GCAACGGCTTATGTGCACTCCTACTC-GCACATAGCCGGGTCA
* *
11045338 ACAACGGCTTATGTGCACT-CTCACTCGCACATAGCTGGGTCA
1 GCAACGGCTTATGTGCACTCCT-ACTCGCACATAGCCGGGTCA
*
11045380 GCAACGGCTTATGTGCACTCCTACTCGCACATAACCGGGTC
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
11045421 CACATCAACA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 66 0.94
43 3 0.04
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.21
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:11046213 original size:19 final size:19
Alignment explanation
Indices: 11046189--11046227 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11046179 AGAAGAAGAC
11046189 AAGCTGCTGAAAATTCAAG
1 AAGCTGCTGAAAATTCAAG
*
11046208 AAGCTGCTGGAAATTCAAG
1 AAGCTGCTGAAAATTCAAG
11046227 A
1 A
11046228 TATTTTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (19 bp):
AAGCTGCTGAAAATTCAAG
Found at i:11049735 original size:21 final size:20
Alignment explanation
Indices: 11049711--11049758 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
11049701 AATCTTGCCT
*
11049711 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
11049732 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
11049753 TTTTTC
1 TTTTTC
11049759 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:11049758 original size:22 final size:22
Alignment explanation
Indices: 11049716--11049756 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11049706 TGCCTTTTTT
*
11049716 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
11049738 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
11049757 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:11055999 original size:63 final size:63
Alignment explanation
Indices: 11055859--11056061 Score: 334
Period size: 63 Copynumber: 3.2 Consensus size: 63
11055849 TCCCCATTTT
* * * * *
11055859 GCACATGCACGGTAGTAATTATCACAACCTTTATCATTAAACCGGCATTTGCACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCA-TTGCACTTCCCACTCC
*
11055923 GTACATGCACGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCATTGCACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCATTGCACTTCCCACTCC
*
11055986 GCACATGCCCGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCATTGCACTTCCCACTCC
1 GCACATGCACGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCATTGCACTTCCCACTCC
11056049 GCACATGCACGGT
1 GCACATGCACGGT
11056062 GGTATCAATT
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
63 89 0.68
64 41 0.32
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (63 bp):
GCACATGCACGGTCGTAATTATCACATCCTTTGTCATTCAACTGGCATTGCACTTCCCACTCC
Found at i:11058619 original size:20 final size:20
Alignment explanation
Indices: 11058596--11058634 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11058586 CCTTTTTTGT
*
11058596 ATTTATTATTATTATTATTA
1 ATTTATTATTATCATTATTA
*
11058616 ATTTATTGTTATCATTATT
1 ATTTATTATTATCATTATT
11058635 TCCTTATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTATTATTATCATTATTA
Found at i:11059041 original size:18 final size:19
Alignment explanation
Indices: 11059018--11059063 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
11059008 TTTTATTTTT
11059018 ATTTATTTTTTACTA-ATC
1 ATTTATTTTTTACTATATC
* *
11059036 ATTTATTTATTCCTATATC
1 ATTTATTTTTTACTATATC
11059055 ATTT-TTTTT
1 ATTTATTTTT
11059064 ACCTTAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTTTTACTATATC
Found at i:11060567 original size:22 final size:22
Alignment explanation
Indices: 11060546--11060586 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11060536 AAAACTTATA
11060546 AAAT-AAATAAAAAGAAAATAT
1 AAATAAAATAAAAAGAAAATAT
* *
11060567 AAGTAAAATAAAAATAAAAT
1 AAATAAAATAAAAAGAAAAT
11060587 GATGTCTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 3 0.18
22 14 0.82
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAATAAAATAAAAAGAAAATAT
Found at i:11060574 original size:11 final size:11
Alignment explanation
Indices: 11060545--11060586 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
11060535 AAAAACTTAT
11060545 AAAAT-AAATA
1 AAAATAAAATA
*
11060555 AAAAGAAAATA
1 AAAATAAAATA
* *
11060566 TAAGTAAAATA
1 AAAATAAAATA
11060577 AAAATAAAAT
1 AAAATAAAAT
11060587 GATGTCTACA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:11063328 original size:99 final size:98
Alignment explanation
Indices: 11063203--11063404 Score: 349
Period size: 99 Copynumber: 2.1 Consensus size: 98
11063193 ATATTAATAT
11063203 TATATA-G-TATATCAAATTAATATATGTTATAATTTTATATGTTAAAAAATTTGTATATATAAT
1 TATATATGCTATATCAAATTAATATATGTTATAATTTTATATGTTAAAAAATTTGTATATATAAT
11063266 AACTACTAAATTCTTTCTCTCTCTCTCTCTCCA
66 AACTACTAAATTCTTTCTCTCTCTCTCTCTCCA
11063299 TCATATATGCNTATATCAAAATT-A-ATATGTTATAATTTTATATGTTAAAAAATTTGTATATAT
1 T-ATATATGC-TATATC-AAATTAATATATGTTATAATTTTATATGTTAAAAAATTTGTATATAT
11063362 AATAACTACTAAATTCTTTCTCTCTCTCTCTCTCCA
63 AATAACTACTAAATTCTTTCTCTCTCTCTCTCTCCA
11063398 TATATAT
1 TATATAT
11063405 ATATGTATTA
Statistics
Matches: 101, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
96 1 0.01
97 5 0.05
98 7 0.07
99 76 0.75
100 7 0.07
101 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (98 bp):
TATATATGCTATATCAAATTAATATATGTTATAATTTTATATGTTAAAAAATTTGTATATATAAT
AACTACTAAATTCTTTCTCTCTCTCTCTCTCCA
Found at i:11063521 original size:19 final size:21
Alignment explanation
Indices: 11063499--11063546 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11063489 TAGAAATACT
*
11063499 TATATGTAAATTA-AA-TATA
1 TATATATAAATTACAATTATA
*
11063518 TATATATATATTACAATTATA
1 TATATATAAATTACAATTATA
11063539 TATATATA
1 TATATATA
11063547 TAACATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.44
20 2 0.08
21 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATATATAAATTACAATTATA
Found at i:11063535 original size:25 final size:25
Alignment explanation
Indices: 11063499--11063558 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
11063489 TAGAAATACT
11063499 TATATGTAAATTAAATATATATATA
1 TATATGTAAATTAAATATATATATA
*
11063524 TATAT-TACAATTATATATATATATA
1 TATATGTA-AATTAAATATATATATA
*
11063549 -ACATGTAAAT
1 TATATGTAAAT
11063559 ATATATAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (25 bp):
TATATGTAAATTAAATATATATATA
Found at i:11063547 original size:19 final size:19
Alignment explanation
Indices: 11063516--11063565 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
11063506 AAATTAAATA
*
11063516 TATATATATATATTACAAT-
1 TATATATATATATAAC-ATG
11063535 TATATATATATATAACATG
1 TATATATATATATAACATG
*
11063554 TAAATATATATA
1 TATATATATATA
11063566 GTTGTTATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TATATATATATATAACATG
Found at i:11063664 original size:22 final size:22
Alignment explanation
Indices: 11063633--11063674 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11063623 GATATAATTA
11063633 TATATGTAATACTTATTGTAAGT
1 TATATGTAATACTTA-TGTAAGT
11063656 TATA-GTAATACTTATGTAA
1 TATATGTAATACTTATGTAA
11063675 AAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (22 bp):
TATATGTAATACTTATGTAAGT
Found at i:11074989 original size:19 final size:18
Alignment explanation
Indices: 11074961--11074997 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11074951 TCACTATCTA
*
11074961 GGGGCAAAATGGTCATTT
1 GGGGCAAAATGGTAATTT
11074979 GGGGACAAAATGGTAATTT
1 GGGG-CAAAATGGTAATTT
11074998 TTAGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (18 bp):
GGGGCAAAATGGTAATTT
Found at i:11075051 original size:19 final size:19
Alignment explanation
Indices: 11075029--11075066 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11075019 CCATTTGACT
11075029 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11075048 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
11075067 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:11075621 original size:91 final size:90
Alignment explanation
Indices: 11075466--11075643 Score: 338
Period size: 91 Copynumber: 2.0 Consensus size: 90
11075456 AAAAAGGTAG
11075466 GATTTTTCAACTTAAGCTTGAAATCTATTTTCCTTAAGCATTTCTCCTTATTTTCCATGCTTAAA
1 GATTTTTCAACTTAAGCTTGAAATCTATTTTCCTTAAGCATTTCTCCTTATTTTCCATGCTTAAA
11075531 TTACATGTTTTCATGATGAATTGNAA
66 TTACATGTTTTCATGATGAATTG-AA
11075557 GATTTTTCAACTTAAGCTTGAAATCTATTTTCCTTAAGCATTTCTCCTTATTTTCCATGCTTAAA
1 GATTTTTCAACTTAAGCTTGAAATCTATTTTCCTTAAGCATTTCTCCTTATTTTCCATGCTTAAA
*
11075622 TTACATGTTTTTATGATGAATT
66 TTACATGTTTTCATGATGAATT
11075644 TTTGGCTGAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (90 bp):
GATTTTTCAACTTAAGCTTGAAATCTATTTTCCTTAAGCATTTCTCCTTATTTTCCATGCTTAAA
TTACATGTTTTCATGATGAATTGAA
Found at i:11091648 original size:42 final size:43
Alignment explanation
Indices: 11091564--11091654 Score: 157
Period size: 42 Copynumber: 2.1 Consensus size: 43
11091554 ACCATCCCAC
* *
11091564 CATCATCAGCTCATGTGCACTTCCCACTCGCACATAGTTGGGT
1 CATCATCAGCTCATGTGCACTTCCCACACGCACATAGCTGGGT
11091607 CATCATCAGCTCATGTGCAC-TCCCACACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTTCCCACACGCACATAGCTGGGT
11091649 CATCAT
1 CATCAT
11091655 TATCTCAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (43 bp):
CATCATCAGCTCATGTGCACTTCCCACACGCACATAGCTGGGT
Found at i:11096043 original size:22 final size:22
Alignment explanation
Indices: 11096015--11096061 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
11096005 TAAGAGAGAA
11096015 AGAGCAAGTAATAAACAAAAAC
1 AGAGCAAGTAATAAACAAAAAC
11096037 AGAGCAAGTAATAAACAAAAAC
1 AGAGCAAGTAATAAACAAAAAC
11096059 AGA
1 AGA
11096062 ACCTTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (22 bp):
AGAGCAAGTAATAAACAAAAAC
Found at i:11100899 original size:21 final size:22
Alignment explanation
Indices: 11100874--11100914 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11100864 CCTAGGTGGA
*
11100874 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
11100895 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
11100915 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:11100915 original size:20 final size:21
Alignment explanation
Indices: 11100874--11100918 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11100864 CCTAGGTGGA
*
11100874 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
11100895 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
11100915 AAAA
1 AAAA
11100919 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:11100919 original size:21 final size:20
Alignment explanation
Indices: 11100872--11100919 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
11100862 ACCCTAGGTG
*
11100872 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
11100892 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
11100914 GAAAAA
1 GAAAAA
11100920 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:11102760 original size:12 final size:12
Alignment explanation
Indices: 11102743--11102774 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11102733 TGAGAAAATA
11102743 GAATATTTTATT
1 GAATATTTTATT
11102755 GAATATTTTATT
1 GAATATTTTATT
11102767 GAATATTT
1 GAATATTT
11102775 CTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (12 bp):
GAATATTTTATT
Found at i:11103431 original size:35 final size:35
Alignment explanation
Indices: 11103364--11103529 Score: 129
Period size: 35 Copynumber: 4.6 Consensus size: 35
11103354 CCCAACTCAT
* ** *
11103364 GTGCACTCCCACACCGCACATAGCTAGGTCATCAT
1 GTGCACTCCCACACCGCACATAGCAATATCATCAG
11103399 GTGCACTCCCACACCGCACATTA-CAATATCATCGTCAG
1 GTGCACTCCCACACCGCACA-TAGCAATATCA---TCAG
* * * * * *
11103437 GTGCACTCCCACATCACACCTCATC-ATCATCGTCAA
1 GTGCACTCCCACACCGCACAT-AGCAAT-ATCATCAG
* * *
11103473 GTGCACTCCCACCCCGTACACAGCCAAATATCATCAG
1 GTGCACTCCCACACCGCACATAG-C-AATATCATCAG
11103510 GTGCACTCCCACACCGCACA
1 GTGCACTCCCACACCGCACA
11103530 CACACAGTTG
Statistics
Matches: 101, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
35 26 0.26
36 21 0.21
37 25 0.25
38 25 0.25
39 4 0.04
ACGTcount: A:0.28, C:0.40, G:0.13, T:0.19
Consensus pattern (35 bp):
GTGCACTCCCACACCGCACATAGCAATATCATCAG
Found at i:11106082 original size:28 final size:30
Alignment explanation
Indices: 11106024--11106083 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
11106014 TTTTTGAAAT
*
11106024 TTACACTTTTGCCCCCATAAAAGTGAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
* *
11106054 TTACATTTTTG-CCCTA-AAAACTGAAAAA
1 TTACACTTTTGCCCCCATAAAACTGAAAAA
11106082 TT
1 TT
11106084 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 4 0.15
30 10 0.37
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCCATAAAACTGAAAAA
Found at i:11118725 original size:35 final size:35
Alignment explanation
Indices: 11118686--11118787 Score: 143
Period size: 35 Copynumber: 2.9 Consensus size: 35
11118676 GTGTGGATAG
11118686 TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
1 TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
**
11118721 TGATGTTGATGTGTGTAAGTAGGGAGTGCACACGA
1 TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
* * *
11118756 TGATATTGCCT-TGTGCGTGTAGGGAGTGCACA
1 TGATGTTG-ATGTGTGCGAGTAGGGAGTGCACA
11118788 TTGGCTGAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 58 0.98
36 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.37, T:0.28
Consensus pattern (35 bp):
TGATGTTGATGTGTGCGAGTAGGGAGTGCACACGA
Found at i:11127005 original size:19 final size:18
Alignment explanation
Indices: 11126967--11127005 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11126957 ACTCTAGTTT
* *
11126967 TTTCAAAATCATTATTAA
1 TTTCAAAATAATTATAAA
11126985 TTTCAAAATAATTTATAAA
1 TTTCAAAATAA-TTATAAA
11127004 TT
1 TT
11127006 AATTTCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTCAAAATAATTATAAA
Found at i:11133423 original size:31 final size:31
Alignment explanation
Indices: 11133371--11133463 Score: 99
Period size: 31 Copynumber: 3.1 Consensus size: 31
11133361 CTTCTCCATT
* *
11133371 TTTCCTATTTGGGCTAAGCCCATTTATTTTTA
1 TTTCCTA-TTGGGCCATGCCCATTTATTTTTA
*
11133403 TTTCCTATTGGGCCATGCCCACTTA----T-
1 TTTCCTATTGGGCCATGCCCATTTATTTTTA
11133429 TTTCC-ATTGGGCCATGCCCATTTATTTTCTA
1 TTTCCTATTGGGCCATGCCCATTTATTTT-TA
11133460 TTTC
1 TTTC
11133464 TTTTCTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
25 18 0.35
26 5 0.10
27 1 0.02
30 1 0.02
31 19 0.37
32 7 0.14
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.46
Consensus pattern (31 bp):
TTTCCTATTGGGCCATGCCCATTTATTTTTA
Found at i:11133428 original size:25 final size:25
Alignment explanation
Indices: 11133400--11133461 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
11133390 CCATTTATTT
11133400 TTATTTCCTATTGGGCCATGCCCAC
1 TTATTTCCTATTGGGCCATGCCCAC
*
11133425 TTATTTTCC-ATTGGGCCATGCCCAT
1 TTA-TTTCCTATTGGGCCATGCCCAC
*
11133450 TTATTTTCTATT
1 TTATTTCCTATT
11133462 TCTTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 4 0.12
25 24 0.73
26 5 0.15
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (25 bp):
TTATTTCCTATTGGGCCATGCCCAC
Found at i:11133490 original size:16 final size:16
Alignment explanation
Indices: 11133453--11133487 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11133443 TGCCCATTTA
11133453 TTTTCTATTTCTTTTC
1 TTTTCTATTTCTTTTC
*
11133469 TTTTCTTTTTC-TTTC
1 TTTTCTATTTCTTTTC
11133484 TTTT
1 TTTT
11133488 TCTCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTATTTCTTTTC
Found at i:11133739 original size:34 final size:34
Alignment explanation
Indices: 11133701--11133778 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
11133691 CACAAAGCTG
11133701 TCCAATTTTCCTGCACAAACTACTAACAAACAGC
1 TCCAATTTTCCTGCACAAACTACTAACAAACAGC
* * **
11133735 TCCAATTTTTCTGCACAAATTGGTAACAAACAGC
1 TCCAATTTTCCTGCACAAACTACTAACAAACAGC
**
11133769 TTAAATTTTC
1 TCCAATTTTC
11133779 AGCAGCCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (34 bp):
TCCAATTTTCCTGCACAAACTACTAACAAACAGC
Found at i:11134221 original size:25 final size:24
Alignment explanation
Indices: 11134175--11134221 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
11134165 CATTCTTCTC
** *
11134175 TTTTGTTTTCTTTGTTTTTTTTTT
1 TTTTGTTTTCTTCCTTTCTTTTTT
11134199 TTTTGTCTTTCTTCCTTTCTTTT
1 TTTTGT-TTTCTTCCTTTCTTTT
11134222 GCTTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTGTTTTCTTCCTTTCTTTTTT
Found at i:11135278 original size:22 final size:22
Alignment explanation
Indices: 11135223--11135279 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
11135213 CTGTACCTTC
*
11135223 CTCGCTGCAGCAAAAATAGATT
1 CTCGCTGCAGCGAAAATAGATT
*
11135245 CTCACTGCAGCGAAAATAGATT
1 CTCGCTGCAGCGAAAATAGATT
11135267 CTCGCTGCAGCGA
1 CTCGCTGCAGCGA
11135280 GTTTCTGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (22 bp):
CTCGCTGCAGCGAAAATAGATT
Found at i:11135586 original size:42 final size:42
Alignment explanation
Indices: 11135539--11135663 Score: 205
Period size: 42 Copynumber: 3.0 Consensus size: 42
11135529 CATCCCATAT
11135539 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTCA
*
11135581 GCAACGGCTTATGTGCACTCCCACTCGCACATAGTCAGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTCA
* ** *
11135623 GCAACGGCTTGTGTGCACTCTTACTCGCACATAGCCGGGTC
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTC
11135664 TACATCAACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.22
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTCA
Found at i:11142762 original size:19 final size:19
Alignment explanation
Indices: 11142738--11142782 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11142728 ACCAACCGAT
11142738 GGTTTCTTGACTGGCCAAG
1 GGTTTCTTGACTGGCCAAG
**
11142757 GGTTTCTTGACTGGCTGAG
1 GGTTTCTTGACTGGCCAAG
11142776 GGTTTCT
1 GGTTTCT
11142783 CACCAAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.33, T:0.38
Consensus pattern (19 bp):
GGTTTCTTGACTGGCCAAG
Found at i:11146700 original size:45 final size:45
Alignment explanation
Indices: 11146644--11146753 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
11146634 TACTGAACAA
* * *
11146644 GAAGAACAGGAAAAAGAAAAACAACCACCCATAGAA-AAGCATAAG
1 GAAGAAAAGGAAAAAGAAAAACAACCACCCACAGAAGAA-AATAAG
* * ** *
11146689 GAAGAAAAGGAAACAGAAAAAGAACCTGCCACAGAAGAAAATGAG
1 GAAGAAAAGGAAAAAGAAAAACAACCACCCACAGAAGAAAATAAG
11146734 GAAGAAAAGGAAAAAGAAAA
1 GAAGAAAAGGAAAAAGAAAA
11146754 GAATCCCAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 53 0.96
46 2 0.04
ACGTcount: A:0.62, C:0.13, G:0.22, T:0.04
Consensus pattern (45 bp):
GAAGAAAAGGAAAAAGAAAAACAACCACCCACAGAAGAAAATAAG
Found at i:11147419 original size:44 final size:44
Alignment explanation
Indices: 11147347--11147444 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
11147337 TGTTTTTTTT
* **
11147347 TTTTGTGATAAACAATGTGGAACAATGGTTGTGTGGTTTATATG
1 TTTTGTGATGAACAATGTGGAACAATGGTTACGTGGTTTATATG
* *
11147391 TTTTGTGATGAACAATGTTGAACGATGGTTACGTGGTTTATATG
1 TTTTGTGATGAACAATGTGGAACAATGGTTACGTGGTTTATATG
*
11147435 TTTTATGATG
1 TTTTGTGATG
11147445 GTGTTATGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.26, C:0.05, G:0.27, T:0.43
Consensus pattern (44 bp):
TTTTGTGATGAACAATGTGGAACAATGGTTACGTGGTTTATATG
Found at i:11149768 original size:14 final size:14
Alignment explanation
Indices: 11149742--11149779 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
11149732 CAAATTCAAG
*
11149742 TAACT-AAATTAAT
1 TAACTAAAACTAAT
11149755 TAACTAAAACTAAT
1 TAACTAAAACTAAT
*
11149769 TAACCAAAACT
1 TAACTAAAACT
11149780 TCAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (14 bp):
TAACTAAAACTAAT
Found at i:11154080 original size:20 final size:20
Alignment explanation
Indices: 11154036--11154083 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11154026 AAATTTTTTT
*
11154036 TAACACAAATAAAACACACA
1 TAACATAAATAAAACACACA
* **
11154056 AAACATAAATAAAACATGCA
1 TAACATAAATAAAACACACA
11154076 TAACATAA
1 TAACATAA
11154084 CTTAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.65, C:0.19, G:0.02, T:0.15
Consensus pattern (20 bp):
TAACATAAATAAAACACACA
Found at i:11163140 original size:42 final size:42
Alignment explanation
Indices: 11163043--11163142 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
11163033 CATCTCATAT
*** *
11163043 GCAACGGCTTATGCATATTCCCACTCGCACATAGCAGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTCA
*
11163085 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTCA
*
11163127 GTAACGGCTTATGTGC
1 GCAACGGCTTATGTGC
11163143 CACATCAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTCA
Found at i:11169392 original size:36 final size:37
Alignment explanation
Indices: 11169351--11169422 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
11169341 CACAACCATT
* *
11169351 CTACC-TTTTAATTTGGCTAAGGCATAAGCACTCAAA
1 CTACCTTTTTAACTTGGCTAAGGCATAACCACTCAAA
* *
11169387 CTACCTTTTTAACTTGGTTAAGGTATAACCACTCAA
1 CTACCTTTTTAACTTGGCTAAGGCATAACCACTCAA
11169423 GATGTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 5 0.16
37 26 0.84
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (37 bp):
CTACCTTTTTAACTTGGCTAAGGCATAACCACTCAAA
Found at i:11173570 original size:22 final size:24
Alignment explanation
Indices: 11173535--11173581 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
11173525 CAAACCCTAG
11173535 GTGAAGAATTTCAAGAGAAA-AAGT
1 GTGAAGAATTTCAAG-GAAACAAGT
11173559 GTGAA-AA-TTCAAGGAAACAAGT
1 GTGAAGAATTTCAAGGAAACAAGT
11173581 G
1 G
11173582 ACAAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 11 0.50
23 2 0.09
24 5 0.23
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (24 bp):
GTGAAGAATTTCAAGGAAACAAGT
Found at i:11173587 original size:22 final size:22
Alignment explanation
Indices: 11173544--11173587 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11173534 GGTGAAGAAT
**
11173544 TTCAAGAGAAAAAGTGTGAAAA
1 TTCAAGAGAAAAAGTGACAAAA
11173566 TTCAAG-GAAACAAGTGACAAAA
1 TTCAAGAGAAA-AAGTGACAAAA
11173588 GTAAAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (22 bp):
TTCAAGAGAAAAAGTGACAAAA
Found at i:11177355 original size:19 final size:19
Alignment explanation
Indices: 11177311--11177347 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11177301 CCATTTGACT
*
11177311 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
11177330 TATTAGAGTATGATTTGA
1 TATTAGAGTATGATTTGA
11177348 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:11177444 original size:27 final size:27
Alignment explanation
Indices: 11177393--11177446 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
11177383 TTGGAGTATA
11177393 AGGGCGAAATGGTAATTTTGCCACCCCG
1 AGGGCGAAATGGTAATTTT-CCACCCCG
11177421 AGGGC-AAATCGGTAAATTTT-CACCCC
1 AGGGCGAAAT-GGT-AATTTTCCACCCC
11177447 CTACACTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 10 0.42
28 8 0.33
29 6 0.25
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (27 bp):
AGGGCGAAATGGTAATTTTCCACCCCG
Found at i:11234509 original size:2 final size:2
Alignment explanation
Indices: 11234502--11234531 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11234492 TTTACGTCTA
11234502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11234532 TTCAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11235061 original size:26 final size:25
Alignment explanation
Indices: 11234989--11235079 Score: 128
Period size: 25 Copynumber: 3.5 Consensus size: 25
11234979 TATTTATTTT
* *
11234989 TTTATTTTCTATTCGGCCATGCCCA
1 TTTATTTTCTATTGGGTCATGCCCA
*
11235014 ATTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTGGGTCATGCCCA
11235039 TTTATTTTCTATTTGGGTCATGCCCA
1 TTTATTTTCTA-TTGGGTCATGCCCA
11235065 TTTTTATTTTCTATT
1 --TTTATTTTCTATT
11235080 TCTTTTCTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
25 32 0.54
26 14 0.24
27 2 0.03
28 11 0.19
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.52
Consensus pattern (25 bp):
TTTATTTTCTATTGGGTCATGCCCA
Found at i:11235106 original size:14 final size:15
Alignment explanation
Indices: 11235078--11235113 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
11235068 TTATTTTCTA
11235078 TTTCTTTTCTTTTTC
1 TTTCTTTTCTTTTTC
11235093 TTTCTTTT-TTTTTC
1 TTTCTTTTCTTTTTC
*
11235107 TCTCTTT
1 TTTCTTT
11235114 CACCATCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:11235154 original size:22 final size:22
Alignment explanation
Indices: 11235126--11235173 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
11235116 CCATCACTCC
*
11235126 CTTCACCACCATGTCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
*
11235148 CTTCACCACCGTGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
11235170 CTTC
1 CTTC
11235174 CTTGGGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.46, G:0.08, T:0.35
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:11235340 original size:23 final size:23
Alignment explanation
Indices: 11235309--11235428 Score: 159
Period size: 23 Copynumber: 5.1 Consensus size: 23
11235299 AAATTAATAG
*
11235309 CAAAAAGCTCCAATTTTTCTGCA
1 CAAACAGCTCCAATTTTTCTGCA
* *
11235332 TAAACAGCTCTAATTTTTCTGCA
1 CAAACAGCTCCAATTTTTCTGCA
* *
11235355 GCAAACAACTCAAATTTTTTCTGCA
1 -CAAACAGCTCCAA-TTTTTCTGCA
11235380 CAAACAGCTCCAATTTTTCTGCA
1 CAAACAGCTCCAATTTTTCTGCA
* *
11235403 CAAATAGCTCCAATTTTTCTACA
1 CAAACAGCTCCAATTTTTCTGCA
11235426 CAA
1 CAA
11235429 TTTTTCTGCA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 54 0.64
24 21 0.25
25 10 0.12
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (23 bp):
CAAACAGCTCCAATTTTTCTGCA
Found at i:11235385 original size:48 final size:46
Alignment explanation
Indices: 11235320--11235428 Score: 146
Period size: 48 Copynumber: 2.3 Consensus size: 46
11235310 AAAAAGCTCC
* *
11235320 AATTTTTCTGCATAAACAGCTCTAATTTTTCTGCAGCAAACAACTCA
1 AATTTTTCTGCACAAACAGCTCCAATTTTTCTGCA-CAAACAACTCA
* * *
11235367 AATTTTTTCTGCACAAACAGCTCCAATTTTTCTGCACAAATAGCTCC
1 AA-TTTTTCTGCACAAACAGCTCCAATTTTTCTGCACAAACAACTCA
*
11235414 AATTTTTCTACACAA
1 AATTTTTCTGCACAA
11235429 TTTTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 12 0.22
47 12 0.22
48 31 0.56
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (46 bp):
AATTTTTCTGCACAAACAGCTCCAATTTTTCTGCACAAACAACTCA
Found at i:11243878 original size:15 final size:15
Alignment explanation
Indices: 11243858--11243893 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
11243848 TGAAAAAAAA
11243858 AAGAAAA-AGTGATTG
1 AAGAAAATAGTGA-TG
11243873 AAGAAAATAGTGATG
1 AAGAAAATAGTGATG
11243888 AAGAAA
1 AAGAAA
11243894 TGGCTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (15 bp):
AAGAAAATAGTGATG
Found at i:11245497 original size:3 final size:3
Alignment explanation
Indices: 11245483--11245535 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
11245473 AACAAACTAT
* * * *
11245483 TTA TTG TTA TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11245531 TTA TT
1 TTA TT
11245536 CATTTTCTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11245531 original size:15 final size:15
Alignment explanation
Indices: 11245482--11245560 Score: 65
Period size: 15 Copynumber: 5.4 Consensus size: 15
11245472 AAACAAACTA
*
11245482 TTTATTGTTATTATT
1 TTTATTATTATTATT
* * *
11245497 ATTGTTGTTATTATT
1 TTTATTATTATTATT
*
11245512 ATTATTATTATTATT
1 TTTATTATTATTATT
11245527 TTTATTATTCATT-TT
1 TTTATTATT-ATTATT
* *
11245542 CTTATT-TTCTT-TT
1 TTTATTATTATTATT
11245555 TTTATT
1 TTTATT
11245561 TCATTTCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
13 9 0.16
14 2 0.04
15 41 0.75
16 3 0.05
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:11245541 original size:12 final size:11
Alignment explanation
Indices: 11245492--11245547 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
11245482 TTTATTGTTA
*
11245492 TTATTATTGTT
1 TTATTATTATT
11245503 GTTATTATTATT
1 -TTATTATTATT
11245515 ATTATTATTATTT
1 -TTATTATTA-TT
11245528 TTATTATTCATT
1 TTATTATT-ATT
*
11245540 TTCTTATT
1 TTATTATT
11245548 TTCTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
12 36 0.92
13 3 0.08
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (11 bp):
TTATTATTATT
Found at i:11251544 original size:19 final size:19
Alignment explanation
Indices: 11251520--11251559 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11251510 GAGACAAGAG
11251520 AAAATTTT-TGGAATAAAAT
1 AAAATTTTATGG-ATAAAAT
*
11251539 AAAATTTTATTGATAAAAT
1 AAAATTTTATGGATAAAAT
11251558 AA
1 AA
11251560 TATTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAATTTTATGGATAAAAT
Found at i:11253399 original size:13 final size:13
Alignment explanation
Indices: 11253381--11253405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11253371 AGGGAAATTG
11253381 TGATTTTATAAAA
1 TGATTTTATAAAA
11253394 TGATTTTATAAA
1 TGATTTTATAAA
11253406 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:11255515 original size:18 final size:18
Alignment explanation
Indices: 11255492--11255526 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11255482 TGAATGAAAT
11255492 TAAAATTAA-AAATAAAAA
1 TAAAA-TAATAAATAAAAA
11255510 TAAAATAATAAATAAAA
1 TAAAATAATAAATAAAA
11255527 TATGATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATAATAAATAAAAA
Found at i:11256479 original size:299 final size:302
Alignment explanation
Indices: 11255790--11256887 Score: 930
Period size: 299 Copynumber: 3.7 Consensus size: 302
11255780 TATTTGACTT
* * * * * *
11255790 AAAACTTGAAATTCCAAGACTTAATCTACGCTTGACCTATCTC-AAATCAAGTTCAACTTAAAAA
1 AAAATTTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAAT-AGGTTCGA-TTTAAAA
* * * * *
11255854 TTT-AAAATTCCTAAACTTAATCTAGGCTGGACCTATCTTAGAATAGGTTCAATTTTAAAATTTG
64 TTTGAAAATTCCTAAACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGA-TTTAAAAATTG
* * * *
11255918 AGA-TTCTTAGACTTAATTTAGGTTTGACCTATTTCAAAATAGGTTCGATTTAAAAATTGTGAAG
128 AAATTTC-TAGACTTAATCTAGGTTTGACCTATCTCAAAATAGGTTCGATTTAAAAATTGTGAAA
* * * * *
11255982 TTCTTAAACTTAATCTAGGCTTGACCTACCTTAAAATAGGTTCGATTTAAAAAAAAAATGAAATT
192 TTCTTAAACTT-ATCTAGGCTTAACCTACCTCAAAACAAGTTCGATCTAAAAAAAAAATGAAATT
* * * **
11256047 CCTATACTTAATCTAGGCTCGACCTATCTCAAAACAAGTTTGATTTA
256 CCTAGACTTAACCTAGGCTCAACCTATCTCAAAACAAGTTCAATTTA
** * *
11256094 AAAATTTGAAATTCCTAGGGTTAATATAGG-TTCGACCTATCTCAAAACAGGTTCGATTTAAAAA
1 AAAATTTGAAATTCCTAGACTTAATCTAGGCTT-GACCTATCTCAAAATAGGTTCGATTT-AAAA
* ** * * * * * * *
11256158 CTTG-AAGGTCCTAGATTTAATCTAGGCTTGACTTGTCCCAAAACAGGTTTGATTTGAAAAAATT
64 TTTGAAAATTCCTAAACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTT--AAAAATT
* *
11256222 GAAATTTCTAGACTTAATCTAGGTTTGACCTATCTCAAACTAGGTTCGATTT-AAAATTTTGAAA
127 GAAATTTCTAGACTTAATCTAGGTTTGACCTATCTCAAAATAGGTTCGATTTAAAAATTGTGAAA
* * *
11256286 TTCTTATAC-T-T-T-GGCTTAACCTATCTCAAAACAAGTTTGA-CTAAAAAAAAAATTGAAATT
192 TTCTTAAACTTATCTAGGCTTAACCTACCTCAAAACAAGTTCGATCTAAAAAAAAAA-TGAAATT
* *
11256346 CTTAGACTTAACCTAGGCTCAACCTATCTCAAAACACGTTCAATTTA
256 CCTAGACTTAACCTAGGCTCAACCTATCTCAAAACAAGTTCAATTTA
* * * *
11256393 AAAATTTGAAGTTCTTAGACTTAATCTAGGCTTGACCTATTTCAAAATAGGTTCGATTTAAAGTT
1 AAAATTTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAATT
*
11256458 TGAAAATTCCTAAACTTAATCTACG-TTCGACCTATCTCAAAATAGGTTCGA-TTAAAAATT-AA
66 TGAAAATTCCTAAACTTAATCTAGGCTT-GACCTATCTCAAAATAGGTTCGATTTAAAAATTGAA
* ** * * * * *
11256520 ACTTCCTAGACTTAATCTAGACTTAAACAATCTCAAAATAGGTTTGATTTTAAAAAATT-TGAAG
130 A-TTTCTAGACTTAATCTAGGTTTGACCTATCTCAAAATAGGTTCGA-TTT-AAAAATTGTGAAA
* * * * * ** * * * * *
11256584 TTCCTAGACTTAATCTAGACTTGACATATGTCAAAA-TAGATTTGAT-T--TAAATAATTGAAAT
192 TTCTTAAACTT-ATCTAGGCTTAACCTACCTCAAAACAAG-TTCGATCTAAAAAAAAAATGAAAT
* * * * ** * * *
11256645 TCCAAAACTTAATCTATGCTTGACCTATAAT-AAAATAAGTTCGATTTA
255 TCCTAGACTTAACCTAGGCTCAACCTAT-CTCAAAACAAGTTCAATTTA
* * * * * * *
11256693 AAATTTTAAAATTCCTAGACTTTATCTAGGTTTGACCTATCTCAAAATAGGTTTG-GTTAAAAAT
1 AAAATTTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAATT
* * * * * * * * *
11256757 T-CAACTTCCTAGACTTAATTTACGCTTGACCTATCTTACAATTGGTTTGATTTAAAAAATTGAA
66 TGAAAATTCCTAAACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTT-AAAAATTGAA
* * * ** * *
11256821 A-TTCTTAGACTTAATCTAGGCTTGACGTATCTCAAAACAATTTCAATTTAAAAAAT-TGAAATT
130 ATTTC-TAGACTTAATCTAGGTTTGACCTATCTCAAAATAGGTTCGATTTAAAAATTGTGAAATT
11256884 CTTA
194 CTTA
11256888 TATGGTAGCT
Statistics
Matches: 638, Mismatches: 128, Indels: 62
0.77 0.15 0.07
Matches are distributed among these distances:
295 3 0.00
296 44 0.07
297 3 0.00
298 85 0.13
299 176 0.28
300 129 0.20
301 11 0.02
302 3 0.00
303 29 0.05
304 99 0.16
305 53 0.08
306 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (302 bp):
AAAATTTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAATT
TGAAAATTCCTAAACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAATTGAAA
TTTCTAGACTTAATCTAGGTTTGACCTATCTCAAAATAGGTTCGATTTAAAAATTGTGAAATTCT
TAAACTTATCTAGGCTTAACCTACCTCAAAACAAGTTCGATCTAAAAAAAAAATGAAATTCCTAG
ACTTAACCTAGGCTCAACCTATCTCAAAACAAGTTCAATTTA
Found at i:11256532 original size:178 final size:176
Alignment explanation
Indices: 11255632--11256884 Score: 984
Period size: 178 Copynumber: 7.0 Consensus size: 176
11255622 AAGTTCTTAA
* * * * * *
11255632 ACTTAATCTACGCTTGACGTATCTCAAAATAGATTCGATTT-AAACTTTG-AATTCCTAGGCTTA
1 ACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCAATTTAAAAATTTGAAATTCCTAGACTTA
* * * * * *
11255695 ATTTAAGCTTGACCTATCTCAAATTAGATTCGATTT-AAACTTGAAATTCCTAGGCTTAATCTAG
66 ATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAATTTGAAATTCCTAGACTTAATCTAG
* ** * * * *
11255759 GCTTGACCTATCTAAAAAATATATTTGACTTAAAACTTGAAATTCCAAG
131 G-TTGACCTATCT-CAAAATAGGTTCGATTTAAAAATT-AAATTCCTAG
* * * * *
11255808 ACTTAATCTACGCTTGACCTATCTC-AAATCAAGTTCAACTTAAAAATTTAAAATTCCTAAACTT
1 ACTTAATCTAGGCTTGACCTATCTCAAAAT-AGGTTCAATTTAAAAATTTGAAATTCCTAGACTT
* * * * * * *
11255872 AATCTAGGCTGGACCTATCTTAGAATAGGTTCAATTTTAAAATTTGAGATTCTTAGACTTAATTT
65 AATCTAGGCTTGACCTATCTCAAAATAGGTTCGA-TTTAAAATTTGAAATTCCTAGACTTAATCT
* * * *
11255937 AGGTTTGACCTATTTCAAAATAGGTTCGATTTAAAAATTGTGAAGTTCTTAA
129 AGG-TTGACCTATCTCAAAATAGGTTCGATTTAAAAA-T-T-AAATTCCTAG
* * * ** *
11255989 ACTTAATCTAGGCTTGACCTACCTTAAAATAGGTTCGATTTAAAAAAAAAATGAAATTCCTATAC
1 ACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCAATTT---AAAAATTTGAAATTCCTAGAC
* * * * **
11256054 TTAATCTAGGCTCGACCTATCTCAAAACAAGTTTGATTTAAAAATTTGAAATTCCTAGGGTTAAT
63 TTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTT-AAAATTTGAAATTCCTAGACTTAAT
* * **
11256119 ATAGGTTCGACCTATCTCAAAACAGGTTCGATTTAAAAACTTGAAGGTCCTAG
127 CTAGGTT-GACCTATCTCAAAATAGGTTCGATTTAAAAA-TT-AAATTCCTAG
* * * * * ** * *
11256172 ATTTAATCTAGGCTTGACTTGTCCCAAAACAGGTTTGATTTGAAAAAATTGAAATTTCTAGACTT
1 ACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCAATTT-AAAAATTTGAAATTCCTAGACTT
* * * *
11256237 AATCTAGGTTTGACCTATCTCAAACTAGGTTCGATTTAAAATTTTGAAATTCTTATAC-T--T-T
65 AATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAA-TTTGAAATTCCTAGACTTAATCT
* * * * ** *
11256298 -GGCTTAACCTATCTCAAAACAAGTTTGACTAAAAAAAAAATTGAAATTCTTAG
129 AGG-TTGACCTATCTCAAAATAGGTTCGA-T---TTAAAAATT-AAATTCCTAG
* ** * * * *
11256351 ACTTAACCTAGGCTCAACCTATCTCAAAACACGTTCAATTTAAAAATTTGAAGTTCTTAGACTTA
1 ACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCAATTTAAAAATTTGAAATTCCTAGACTTA
* * *
11256416 ATCTAGGCTTGACCTATTTCAAAATAGGTTCGATTTAAAGTTTGAAAATTCCTAAACTTAATCTA
66 ATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAATTTG-AAATTCCTAGACTTAATCTA
*
11256481 CGTTCGACCTATCTCAAAATAGGTTCGA-TTAAAAATTAAACTTCCTAG
130 GGTT-GACCTATCTCAAAATAGGTTCGATTTAAAAATTAAA-TTCCTAG
* * * * * * *
11256529 ACTTAATCTAGACTTAAACAATCTCAAAATAGGTTTGATTTTAAAAAATTTGAAGTTCCTAGACT
1 ACTTAATCTAGGCTTGACCTATCTCAAAATAGG-TTCAATTT-AAAAATTTGAAATTCCTAGACT
* * * * * * * *
11256594 TAATCTAGACTTGACATATGTCAAAATAGATTTGATTTAAATAATTGAAATTCCAAAACTTAATC
64 TAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAA-ATTTGAAATTCCTAGACTTAATC
* * * *
11256659 TATGCTTGACCTATAAT-AAAATAAGTTCGATTTAAAATTTTAAAATTCCTAG
128 TA-GGTTGACCTAT-CTCAAAATAGGTTCGATTTAAAA-ATT-AAATTCCTAG
* * *** * *
11256711 ACTTTATCTAGGTTTGACCTATCTCAAAATAGGTT-TGGTTAAAAA-TTCAACTTCCTAGACTTA
1 ACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCAATTTAAAAATTTGAAATTCCTAGACTTA
* * * * * * * *
11256774 ATTTACGCTTGACCTATCTTACAATTGGTTTGATTTAAAAAATTGAAATTCTTAGACTTAATCTA
66 ATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTT-AAAATTTGAAATTCCTAGACTTAATCTA
* * ** *
11256839 GGCTTGACGTATCTCAAAACAATTTCAATTTAAAAAATTGAAATTC
130 GG-TTGACCTATCTCAAAATAGGTTCGATTT-AAAAATT-AAATTC
11256885 TTATATGGTA
Statistics
Matches: 864, Mismatches: 174, Indels: 76
0.78 0.16 0.07
Matches are distributed among these distances:
175 4 0.00
176 53 0.06
177 19 0.02
178 237 0.27
179 79 0.09
180 142 0.16
181 116 0.13
182 43 0.05
183 70 0.08
184 101 0.12
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (176 bp):
ACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCAATTTAAAAATTTGAAATTCCTAGACTTA
ATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAATTTGAAATTCCTAGACTTAATCTAG
GTTGACCTATCTCAAAATAGGTTCGATTTAAAAATTAAATTCCTAG
Found at i:11256887 original size:60 final size:60
Alignment explanation
Indices: 11255618--11256884 Score: 1053
Period size: 60 Copynumber: 21.2 Consensus size: 60
11255608 CTCAAAGTTG
* * * * * * *
11255618 ATTGAAGTTCTTAAACTTAATCTACGCTTGACGTATCTCAAAATAGATTCGATTT-AAAC
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * * *
11255677 TTTG-AATTCCTAGGCTTAATTTAAGCTTGACCTATCTCAAATTAGATTCGATTT--AAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * ** * *
11255734 CTTGAAATTCCTAGGCTTAATCTAGGCTTGACCTATCTAAAAAATATATTTGACTT-AAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCT-CAAAATAGGTTCGATTTAAAAA
* * * * * *
11255794 CTTGAAATTCCAAGACTTAATCTACGCTTGACCTATCTC-AAATCAAGTTCAACTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAAT-AGGTTCGATTTAAAAA
* * * * * * * *
11255854 TTTAAAATTCCTAAACTTAATCTAGGCTGGACCTATCTTAGAATAGGTTCAATTTTAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * * *
11255914 TTTGAGATTCTTAGACTTAATTTAGGTTTGACCTATTTCAAAATAGGTTCGATTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * * *
11255974 TTGTGAAGTTCTTAAACTTAATCTAGGCTTGACCTACCTTAAAATAGGTTCGATTTAAAAAAAA
1 AT-TGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTT---AAAAA
* * * * * *
11256038 AATGAAATTCCTATACTTAATCTAGGCTCGACCTATCTCAAAACAAGTTTGATTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* ** * *
11256098 TTTGAAATTCCTAGGGTTAATATAGG-TTCGACCTATCTCAAAACAGGTTCGATTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTT-GACCTATCTCAAAATAGGTTCGATTTAAAAA
* ** * * * * * *
11256158 CTTGAAGGTCCTAGATTTAATCTAGGCTTGACTTGTCCCAAAACAGGTTTGATTTGAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTT-AAAAA
* * * *
11256219 ATTGAAATTTCTAGACTTAATCTAGGTTTGACCTATCTCAAACTAGGTTCGATTTAAAAT
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * * * * **
11256279 TTTGAAATTCTTATAC-T--T-T-GGCTTAACCTATCTCAAAACAAGTTTGACTAAAAAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGA-T--TTAAAAA
* * ** * * *
11256337 ATTGAAATTCTTAGACTTAACCTAGGCTCAACCTATCTCAAAACACGTTCAATTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * *
11256397 TTTGAAGTTCTTAGACTTAATCTAGGCTTGACCTATTTCAAAATAGGTTCGATTT-AAAG
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * *
11256456 TTTGAAAATTCCTAAACTTAATCTACG-TTCGACCTATCTCAAAATAGGTTCGA-TT-AAAA
1 ATTG-AAATTCCTAGACTTAATCTAGGCTT-GACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * *
11256515 ATT-AAACTTCCTAGACTTAATCTAGACTTAAACAATCTCAAAATAGGTTTGATTTTAAAAA
1 ATTGAAA-TTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGA-TTTAAAAA
* * * * * * *
11256576 ATTTGAAGTTCCTAGACTTAATCTAGACTTGACATATGTCAAAATAGATTTGATTTAAATA
1 A-TTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * * *
11256637 ATTGAAATTCCAAAACTTAATCTATGCTTGACCTATAAT-AAAATAAGTTCGATTTAAAAT
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTAT-CTCAAAATAGGTTCGATTTAAAAA
* * * * * *
11256697 TTTAAAATTCCTAGACTTTATCTAGGTTTGACCTATCTCAAAATAGGTTTG-GTT-AAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * * * * * *
11256755 ATTCAACTTCCTAGACTTAATTTACGCTTGACCTATCTTACAATTGGTTTGATTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
* * * ** *
11256815 ATTGAAATTCTTAGACTTAATCTAGGCTTGACGTATCTCAAAACAATTTCAATTTAAAAA
1 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
11256875 ATTGAAATTC
1 ATTGAAATTC
11256885 TTATATGGTA
Statistics
Matches: 971, Mismatches: 203, Indels: 67
0.78 0.16 0.05
Matches are distributed among these distances:
55 22 0.02
56 2 0.00
57 9 0.01
58 174 0.18
59 48 0.05
60 486 0.50
61 112 0.12
62 43 0.04
63 70 0.07
64 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (60 bp):
ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAAAATAGGTTCGATTTAAAAA
Done.