Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 30 of 82
Found at i:10696605 original size:5 final size:5
Alignment explanation
Indices: 10696597--10696636 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
10696587 CAATCTAATC
* *
10696597 TAACT TAACT TAACT TAACT TATCT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
10696637 GGACTTGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (5 bp):
TAACT
Found at i:10696706 original size:11 final size:11
Alignment explanation
Indices: 10696666--10696704 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
10696656 TACTGTAAAT
10696666 TTTAAAACAAC
1 TTTAAAACAAC
10696677 TTTAAAACAAC
1 TTTAAAACAAC
* *
10696688 TTTAAACCAGC
1 TTTAAAACAAC
10696699 TTTAAA
1 TTTAAA
10696705 CCCAAAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:10699805 original size:19 final size:19
Alignment explanation
Indices: 10699777--10699818 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10699767 ATTTTTTATA
*
10699777 TTATTTTATT-AATAAAATT
1 TTATTCTATTCAA-AAAATT
*
10699796 TTATTCTATTCCAAAAATT
1 TTATTCTATTCAAAAAATT
10699815 TTAT
1 TTAT
10699819 CTTGTCTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTCTATTCAAAAAATT
Found at i:10711895 original size:25 final size:25
Alignment explanation
Indices: 10711867--10711926 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
10711857 GTTGTCATAA
10711867 CCACGTATATCAACT-CGTGGCCTAG
1 CCACGTATATCAA-TACGTGGCCTAG
* *
10711892 CCACGTATAACAATACGTGGCCTTG
1 CCACGTATATCAATACGTGGCCTAG
*
10711917 CCAAGTATAT
1 CCACGTATAT
10711927 ATCATAGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (25 bp):
CCACGTATATCAATACGTGGCCTAG
Found at i:10712998 original size:19 final size:21
Alignment explanation
Indices: 10712960--10712999 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
10712950 CCACTCATGC
*
10712960 CACATTGTACATTAAATCAAG
1 CACATTGTACAATAAATCAAG
10712981 CACATTG-ACAAT-AATCAAG
1 CACATTGTACAATAAATCAAG
10713000 TTTTCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (21 bp):
CACATTGTACAATAAATCAAG
Found at i:10713292 original size:84 final size:84
Alignment explanation
Indices: 10713151--10713317 Score: 255
Period size: 84 Copynumber: 2.0 Consensus size: 84
10713141 ATAGTAGGAG
* * * **
10713151 TCATCGTGTGCACCCCCACATCGTGCACAATTAATGCCAACATGTGCTCCCCCCACATCGCGTAC
1 TCATCATGTGCACCCCCACATCGCGCACAACTAATGCCAACATGTGCTCCCCCCACATCGCACAC
10713216 AT-GGCATATATCATCATCA
66 ATAGGCA-ATATCATCATCA
*
10713235 TCATCATGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCACAC
1 TCATCATGTGCACCCCCACATCGCGCACAACTAATGCCAACATGTGCTCCCCCCACATCGCACAC
*
10713300 ATAGGCAATCTCATCATC
66 ATAGGCAATATCATCATC
10713318 CACACTCCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 71 0.95
85 4 0.05
ACGTcount: A:0.26, C:0.38, G:0.13, T:0.22
Consensus pattern (84 bp):
TCATCATGTGCACCCCCACATCGCGCACAACTAATGCCAACATGTGCTCCCCCCACATCGCACAC
ATAGGCAATATCATCATCA
Found at i:10715924 original size:37 final size:37
Alignment explanation
Indices: 10715871--10715976 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
10715861 TAATGTTGTG
*
10715871 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTAGAAGTGTGCGAGTAGGGAGTGCACACA
10715908 TGATGATGATAG-AGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATG-TAGAAGTGTGCGAGTAGGGAGTGCACACA
*
10715945 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGC
1 TGATGATGTAGAAGTGTGCGAGTAGGGAGTGC
10715977 GAGTAGAGAG
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
36 2 0.03
37 61 0.94
38 2 0.03
ACGTcount: A:0.26, C:0.09, G:0.40, T:0.25
Consensus pattern (37 bp):
TGATGATGTAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:10715977 original size:50 final size:50
Alignment explanation
Indices: 10715923--10716026 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
10715913 ATGATAGAGT
* * *
10715923 GTGCGAGTAGGGAGTGCACACATGATGATG-TTGAAGTGTGCGAGTAGGGA
1 GTGCGAGTAGAGAGTGCACACATGATGATGATAG-AGTGTACGAGTAGGGA
10715973 GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGA
1 GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGA
10716023 GTGC
1 GTGC
10716027 ACACATGATG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 48 0.96
51 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.40, T:0.21
Consensus pattern (50 bp):
GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGA
Found at i:10715978 original size:13 final size:13
Alignment explanation
Indices: 10715960--10715989 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10715950 ATGTTGAAGT
*
10715960 GTGCGAGTAGGGA
1 GTGCGAGTAGAGA
10715973 GTGCGAGTAGAGA
1 GTGCGAGTAGAGA
10715986 GTGC
1 GTGC
10715990 ACACATGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.50, T:0.17
Consensus pattern (13 bp):
GTGCGAGTAGAGA
Found at i:10716009 original size:87 final size:87
Alignment explanation
Indices: 10715886--10716063 Score: 338
Period size: 87 Copynumber: 2.0 Consensus size: 87
10715876 ATGTTGAAGT
* *
10715886 GTGCGAGTAGGGAGTGCACACATGATGATGATAGAGTGTGCGAGTAGGGAGTGCACACATGATGA
1 GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGAGTGCACACATGATGA
10715951 TGTTGAAGTGTGCGAGTAGGGA
66 TGTTGAAGTGTGCGAGTAGGGA
10715973 GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGAGTGCACACATGATGA
1 GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGAGTGCACACATGATGA
10716038 TGTTGAAGTGTGCGAGTAGGGA
66 TGTTGAAGTGTGCGAGTAGGGA
10716060 GTGC
1 GTGC
10716064 ACACATGATG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.22
Consensus pattern (87 bp):
GTGCGAGTAGAGAGTGCACACATGATGATGATAGAGTGTACGAGTAGGGAGTGCACACATGATGA
TGTTGAAGTGTGCGAGTAGGGA
Found at i:10716019 original size:37 final size:38
Alignment explanation
Indices: 10715976--10716079 Score: 167
Period size: 37 Copynumber: 2.8 Consensus size: 38
10715966 GTAGGGAGTG
*
10715976 CGAGTAGAGAGTGCACACATGATGATGATAG-AGTGTA
1 CGAGTAGGGAGTGCACACATGATGATGATAGAAGTGTA
* *
10716013 CGAGTAGGGAGTGCACACATGATGATG-TTGAAGTGTG
1 CGAGTAGGGAGTGCACACATGATGATGATAGAAGTGTA
10716050 CGAGTAGGGAGTGCACACATGATGATGATA
1 CGAGTAGGGAGTGCACACATGATGATGATA
10716080 TTGCATTGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
36 2 0.03
37 58 0.95
38 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.22
Consensus pattern (38 bp):
CGAGTAGGGAGTGCACACATGATGATGATAGAAGTGTA
Found at i:10727525 original size:21 final size:20
Alignment explanation
Indices: 10727493--10727531 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
10727483 AAAGTGAGCT
10727493 GATTTTGGTGAT-TTTAAAA
1 GATTTTGGTGATATTTAAAA
10727512 GATTATTGGCTGATATTTAA
1 GATT-TTGG-TGATATTTAA
10727532 TGATTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 4 0.24
22 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
GATTTTGGTGATATTTAAAA
Found at i:10727536 original size:21 final size:20
Alignment explanation
Indices: 10727492--10727537 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
10727482 AAAAGTGAGC
10727492 TGATT-TTGGTGATTTTAAA
1 TGATTATTGGTGATTTTAAA
*
10727511 AGATTATTGGCTGATATTT-AA
1 TGATTATTGG-TGAT-TTTAAA
10727532 TGATTA
1 TGATTA
10727538 GAAATGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 11 0.50
22 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (20 bp):
TGATTATTGGTGATTTTAAA
Found at i:10736495 original size:34 final size:34
Alignment explanation
Indices: 10736410--10736497 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
10736400 TTGGCTGCTG
* * * *
10736410 AAAATTGGAGCTGTTTGCTGCCAATTTGTGTCGA
1 AAAATTGGAGCTATTTGTTGCAAATTTGTGACGA
* *
10736444 AAAATTGGAACTTTTTGTTGCAAATTTGT-ACAGA
1 AAAATTGGAGCTATTTGTTGCAAATTTGTGAC-GA
*
10736478 AAAATTAGAGCTATTTGTTG
1 AAAATTGGAGCTATTTGTTG
10736498 GTAGTTTGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (34 bp):
AAAATTGGAGCTATTTGTTGCAAATTTGTGACGA
Found at i:10736552 original size:24 final size:24
Alignment explanation
Indices: 10736511--10736567 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
10736501 GTTTGTGCAG
10736511 GAAAATTG-GATAGCTTTG-TGCT
1 GAAAATTGAGATAGCTTTGTTGCT
*
10736533 GCCAAAATTGAGA-AGTTTTGTTGCT
1 G--AAAATTGAGATAGCTTTGTTGCT
10736558 GAAAATTGAG
1 GAAAATTGAG
10736568 CTGGAAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.03
23 9 0.30
24 13 0.43
25 7 0.23
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (24 bp):
GAAAATTGAGATAGCTTTGTTGCT
Found at i:10736566 original size:23 final size:23
Alignment explanation
Indices: 10736502--10736567 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
10736492 TTGTTGGTAG
*
10736502 TTTGTGCAGGAAAATTG-GATAGC
1 TTTGTGC-TGAAAATTGAGATAGC
*
10736525 TTTGTGCTGCCAAAATTGAGA-AGT
1 TTTGTGCTG--AAAATTGAGATAGC
10736549 TTTGTTGCTGAAAATTGAG
1 TTTG-TGCTGAAAATTGAG
10736568 CTGGAAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 1 0.03
23 16 0.43
24 13 0.35
25 7 0.19
ACGTcount: A:0.29, C:0.09, G:0.27, T:0.35
Consensus pattern (23 bp):
TTTGTGCTGAAAATTGAGATAGC
Found at i:10737140 original size:171 final size:170
Alignment explanation
Indices: 10736686--10739062 Score: 2526
Period size: 171 Copynumber: 13.9 Consensus size: 170
10736676 TTGTTTCCCA
* * * * * *
10736686 AGGTAAACATTCAGTTACAATCTATTTTAATGAAAAATGTAAAAACATTCAACTTCAAATCGATA
1 AGGTAAACATTCAATTATAATCTGTTTTAATCAAAAATGTAAAAA-ATTCAACTTAAAATCAATA
* * *
10736751 ATGAGATTATAAAACCTTTTAAAGCAAGTAATAAGGCTTTCAAAGGCAT-AGGTGACTATAAATG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGA-GTGACTATAAATG
*
10736815 GACTTTTCTTTGTACAAGTGGATGGCTTTCGCTTCACGTTTCTTG
129 GACTTTTC-TTGT-CAA-TGGATGGCTTTCGCTTCACGTTTCTCG
* **
10736860 AGGTAAACATTCAATTATAAGT-TGTTTT-AGCGAAAAATGTAAAAAATTCAACTTAAAATCCGT
1 AGGTAAACATTCAATTATAA-TCTGTTTTAATC-AAAAATGTAAAAAATTCAACTTAAAATCAAT
** * ** *
10736923 AATGAGATTATAAAATAATTTAACA-CAAGTAATAAGGCACTCGAAGGCATGAGTGACTATATAT
64 AATGAGATTATAAAACCATTTAA-AGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAAT
* * * * * * *
10736987 GAAATTTTCTTGTCAATTGATGGCTTTTGCTTCAAGTTTCCCA
128 GGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * *
10737030 AGGTAAACATTTAATTATAATCTGTTTTAATCAAAAATGTAAACAAATTCAACATAAAACCAATA
1 AGGTAAACATTCAATTATAATCTGTTTTAATCAAAAATGTAAA-AAATTCAACTTAAAATCAATA
* * *
10737095 ATGAGATTATAAAACAATTTAAAGCGAGTAATAAGCCTTTCGAAGGCATGAGTGACTATAAATAG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGG
* *
10737160 ACTTTTCTTTTCAATGGATGGCTTTCGCTTCACGTTTCTTG
130 ACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * * * * * *
10737201 AGATAAACATTTATTTCA-AATCT-TTTAAACCGAAAATGTAAAAAATTCAACTTAAAATTAATA
1 AGGTAAACATTCAATT-ATAATCTGTTTTAATCAAAAATGTAAAAAATTCAACTTAAAATCAATA
* * *
10737264 ATGAGATTATTAAACCATTTAAAGAGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATGG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGG
* * ** *
10737329 A-TATTTCTTGTCAATGGATGGCTTACGCTTAATATTTCCCG
130 ACT-TTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
** *
10737370 AGGTAAACATTCAATT-TCAATCTGTTTTAAGGAAAAATGTAAAAAAAATCAACTTAAAATCAAT
1 AGGTAAACATTCAATTAT-AATCTGTTTTAATCAAAAATGT-AAAAAATTCAACTTAAAATCAAT
* * ** * * *
10737434 AATGAGATTATAAAACCGTTTAAAGCAAGTAATAAAACTGTCGAAGGCATGAATGACTAGAAATG
64 AATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATG
* * ** *
10737499 GACCTTTCTTGTTAATGGATGGCTTTCGCTTTGCGTTTCTCA
129 GACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * * * *
10737541 AGGTAAACATTTATTTACAACCT-TTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAAT
1 AGGTAAACATTCAATTATAATCTGTT-TTAATCAAAAATGT-AAAAAATTCAACTTAAAATCAAT
*
10737605 AATGAGATTATAAAACCATTTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAAT
64 AATGAGATTATAAAACCA-TTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAAT
* * *
10737670 AGACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTCA
128 GGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * * * * * * *
10737713 AGGCAAACATTTATTTCTAACCT-TTCTTAA-CTGAAATTGTAAAAATATTTAACTTAAAATCAA
1 AGGTAAACATTCAATTATAATCTGTT-TTAATC-AAAAATGTAAAAA-ATTCAACTTAAAATCAA
* * * * *
10737776 TAATGAGTTTATAAAACCATTTAAGGCGATTAATAAGGCTTTCAAAGGTAT-AGGTGACTATAAA
63 TAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGA-GTGACTATAAA
** * * * *
10737840 TGGACTTTTCTTGTCAATGGATAACTTTTGCGTCACGATTCTCA
127 TGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * * *
10737884 AGGTTAACATTCAATTATAGTCTATTTTAA-GAAAAATGTAAAAAAATTCAACTT-AAATCAATA
1 AGGTAAACATTCAATTATAATCTGTTTTAATCAAAAATGT-AAAAAATTCAACTTAAAATCAATA
* * * * * *
10737947 ATGAGATTATAAAACCGTTTAAAACAAGTAATAAAGCTGTCGAAGGCATGAGTGACTAGAAATGG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGG
* * *
10738012 A-TCATTCTTGTAAATGGATGGCGTTT-GCTTCACATTTCTCG
130 ACT-TTTCTTGTCAATGGATGGC-TTTCGCTTCACGTTTCTCG
* * * * *
10738053 AGATAAACATTCAACTGTAAGT-TGTTTTAATGAAAAATGTAAAAAAAATTCAACTTAAAATCAG
1 AGGTAAACATTCAATTATAA-TCTGTTTTAATCAAAAATGT--AAAAAATTCAACTTAAAATCAA
* * *
10738117 CATTGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAAT
63 TAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAAT
* * *
10738182 GGAATTTGT-TTGTGAATGGATGGCTTTCGCTACACGTTTCTCG
128 GGACTTT-TCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * * *
10738225 ACGTAAACATTTAATTACAATCTGTTTTAA-CAAAAAATGTAAAAAATTTCAACATAAAATCAAT
1 AGGTAAACATTCAATTATAATCTGTTTTAATC-AAAAATGTAAAAAA-TTCAACTTAAAATCAAT
* * *
10738289 AATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGATTTCGAAGGCATGGGTGACTATAAATG
64 AATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATG
* * *
10738354 GTA-TTTTCTTGTTAATGGATGGTTTTCGCTT-AGAGTTT-TCTG
129 G-ACTTTTCTTGTCAATGGATGGCTTTCGCTTCA-CGTTTCTC-G
* * * * *
10738396 AGGAAAACACTCAATTACAAACTGTTTTAATGAAAAATGTAAAAAAATTCAACTTAAAATCAATA
1 AGGTAAACATTCAATTATAATCTGTTTTAATCAAAAATGT-AAAAAATTCAACTTAAAATCAATA
* * *
10738461 ATGAGATTATAAAACCATTTAGAA-TGAGTAATAAGTCTTTCGAAGGCATAAGTGACTATAAATG
65 ATGAGATTATAAAACCATTTA-AAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATG
* * *
10738525 GACTTTTCTTGT-ATATGGATGGCTTTCGCATCACATTTCTTG
129 GACTTTTCTTGTCA-ATGGATGGCTTTCGCTTCACGTTTCTCG
* * * * * * *
10738567 AGGCAAATAATCAATTATAATATGTTCTAACCAAAAATGGAAAACAAAAATTCAACTTAAAATCA
1 AGGTAAACATTCAATTATAATCTGTTTTAATCAAAAAT-G--TA-AAAAATTCAACTTAAAATCA
** * * * * *
10738632 ATAATGAGATTATAAATTCATTTAAAGTGAGCAATACGGCTTTTGAAGGCATGGGTGACTATAAA
62 ATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAA
* * *
10738697 TGGACTTTTCTTATCAATCGATGGCTTTCGCTTCACGTTTC-CTA
127 TGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTC-G
* * *
10738741 AGGCAAACATTCAATTATAATTTGTTCTAA-CGAAAAATGTAAAAAAATTCAACTTAAAATCAAT
1 AGGTAAACATTCAATTATAATCTGTTTTAATC-AAAAATGT-AAAAAATTCAACTTAAAATCAAT
* ** * * *
10738805 AATGAGATTAT-AAAGCATTCGAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGGAC-ATAAAT
64 AATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGT-GACTATAAAT
* *
10738868 GAACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTCG
128 GGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
* * * * * * *
10738911 AGGTAAACATTTATTTATAACCT-TTCCTAATCGAAAATGTAAAACATTTTAACTTAAAATCAAT
1 AGGTAAACATTCAATTATAATCTGTT-TTAATCAAAAATGTAAAA-AATTCAACTTAAAATCAAT
* * * * * * *
10738975 AATGAGATTACAAAACCATTTAAAGGGAATAACAATGCTTTCAAAGGCATGAGTGACTATAAATA
64 AATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATG
*
10739040 CACTTTTCTTGTCAATGGATGGC
129 GACTTTTCTTGTCAATGGATGGC
10739063 CTTTGTTTCA
Statistics
Matches: 1860, Mismatches: 280, Indels: 129
0.82 0.12 0.06
Matches are distributed among these distances:
168 2 0.00
169 244 0.13
170 264 0.14
171 799 0.43
172 286 0.15
173 83 0.04
174 180 0.10
175 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (170 bp):
AGGTAAACATTCAATTATAATCTGTTTTAATCAAAAATGTAAAAAATTCAACTTAAAATCAATAA
TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGA
CTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG
Found at i:10737949 original size:512 final size:512
Alignment explanation
Indices: 10736632--10739062 Score: 2629
Period size: 512 Copynumber: 4.7 Consensus size: 512
10736622 GAGGCTTTTG
* * * * * *
10736632 GTGACCATAAATAGACTTTTCTTGTTACTAGATGG--TTCTGCTT-ATTGTTTCCCAAGGTAAAC
1 GTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTC-GCTTCA-CGTTTCTCAAGGTAAAC
* * * * *
10736694 ATTCAGTTACAATCTATTTTAA-TGAAAAATGTAAAAACATTCAACTTCAAATCGATAATGAGAT
64 ATTTA-TTTCAATCTGTTTTAACTG-AAAATGTAAAAA-ATTCAACTTAAAATCAATAATGAGAT
* *
10736758 TATAAAACCTTTTAAAGCAAGTAATAAGGCTTTCAAAGGCATAGGTGACTATAAATGGACTTTTC
126 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGGTGACTATAAATGGACTTTTC
* * * *
10736823 TTTGTACAAGTGGATGGCTTTCGCTTCACGTTTCTTGAGGTAAACATTCAATTATAAGT-TGTTT
191 -TTGT-CAA-TGGATGGCTTTTGCGTCACGATTCTCGAGGTAAACATTCAATTATAA-TCTGTTT
** ** **
10736887 TAGCGAAAAATGT-AAAAAATTCAACTTAAAATCCGTAATGAGATTATAAAATAATTTAACA-CA
252 TAATGAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAA-AGCA
* ** * * * * *
10736950 AGTAATAAGGCACTCGAAGGCATGAGTGACTATATATGAAATTTTCTTGTCAATTGATGGCTTTT
316 AGTAATAAAGCTGTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * *
10737015 GCTTCA-AGTTTCCCAAGGTAAACATTTAATTATAATCTGTT-TTAATCAAAAATGTAAACAAAT
381 GCTTCACA-TTTCTCAAGGTAAACATTCAATTATAATCTGTTCTTAACCAAAAATGTAAAAAAAT
* * * * *
10737078 TCAACATAAAACCAATAATGAGATTATAAAACAATTTAAAGCGAGTAATAAGCCTTTCGAAGGCA
445 TCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCA
10737143 TGA
510 TGA
* ** *
10737146 GTGACTATAAATAGACTTTTCTTTTCAATGGATGGCTTTCGCTTCACGTTTCTTGAGATAAACAT
1 GTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCAAGGTAAACAT
* * * *
10737211 TTATTTCAAATCT-TTTAAACCGAAAATGTAAAAAATTCAACTTAAAATTAATAATGAGATTATT
66 TTATTTC-AATCTGTTTTAACTGAAAATGTAAAAAATTCAACTTAAAATCAATAATGAGATTATA
*
10737275 AAACCATTTAAAGAGAGTAATAAGGCTTTCAAAGGCAT-GAGTGACTATAAATGGA-TATTTCTT
130 AAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAG-GTGACTATAAATGGACT-TTTCTT
** * ** * *
10737338 GTCAATGGATGGCTTACGC-TTAATATTTCCCGAGGTAAACATTCAATT-TCAATCTGTTTTAAG
193 GTCAATGGATGGCTTTTGCGTCACGA-TTCTCGAGGTAAACATTCAATTAT-AATCTGTTTTAAT
* *
10737401 GAAAAATGTAAAAAAAATCAACTTAAAATCAATAATGAGATTATAAAACCGTTTAAAGCAAGTAA
256 GAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAA
* * * * * *
10737466 TAAAACTGTCGAAGGCATGAATGACTAGAAATGGACCTTTCTTGTTAATGGATGGCTTTCGCTTT
321 TAAAGCTGTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTC
* * * * * *
10737531 GCGTTTCTCAAGGTAAACATTTATTTACAACCT-TTCTTAACCAAAAATGTAAAAAAATTCAACT
386 ACATTTCTCAAGGTAAACATTCAATTATAATCTGTTCTTAACCAAAAATGTAAAAAAATTCAACT
10737595 TAAAATCAATAATGAGATTATAAAACCATTTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGA
451 TAAAATCAATAATGAGATTATAAAACCA-TTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGA
* *
10737658 GTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTCAAGGCAAACAT
1 GTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCAAGGTAAACAT
* * * *
10737723 TTATTTCTAACCT-TTCTTAACTGAAATTGTAAAAATATTTAACTTAAAATCAATAATGAGTTTA
66 TTATTTC-AATCTGTT-TTAACTGAAAATGTAAAAA-ATTCAACTTAAAATCAATAATGAGATTA
* * *
10737787 TAAAACCATTTAAGGCGATTAATAAGGCTTTCAAAGGTATAGGTGACTATAAATGGACTTTTCTT
128 TAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGGTGACTATAAATGGACTTTTCTT
** * * * *
10737852 GTCAATGGATAACTTTTGCGTCACGATTCTCAAGGTTAACATTCAATTATAGTCTATTTTAA-GA
193 GTCAATGGATGGCTTTTGCGTCACGATTCTCGAGGTAAACATTCAATTATAATCTGTTTTAATGA
* *
10737916 AAAATGTAAAAAAATTCAACTT-AAATCAATAATGAGATTATAAAACCGTTTAAAACAAGTAATA
258 AAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATA
* * *
10737980 AAGCTGTCGAAGGCATGAGTGACTAGAAATGGA-TCATTCTTGTAAATGGATGGCGTTT-GCTTC
323 AAGCTGTCGAAGGCATGAGTGACTATAAATGGACT-TTTCTTGTCAATGGATGGC-TTTCGCTTC
* * * * **
10738043 ACATTTCTCGAGATAAACATTCAACTGTAAGT-TGTT-TTAATGAAAAATGTAAAAAAAATTCAA
386 ACATTTCTCAAGGTAAACATTCAATTATAA-TCTGTTCTTAACCAAAAATGT-AAAAAAATTCAA
** *
10738106 CTTAAAATCAGCATTGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGA
449 CTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGA
* * * * * *
10738170 GTGACTATAAATGGAATTTGT-TTGTGAATGGATGGCTTTCGCTACACGTTTCTCGACGTAAACA
1 GTGACTATAAATAGACTTT-TCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCAAGGTAAACA
* ** *
10738234 TTTAATTACAATCTGTTTTAACAAAAAATGTAAAAAATTTCAACATAAAATCAATAATGAGATTA
65 TTT-ATTTCAATCTGTTTTAACTGAAAATGTAAAAAA-TTCAACTTAAAATCAATAATGAGATTA
* * * *
10738299 TAAAACCATTTAAAGCAAGTAATAAGGATTTCGAAGGCATGGGTGACTATAAATGGTA-TTTTCT
128 TAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGGTGACTATAAATGG-ACTTTTCT
* * * * * * *
10738363 TGTTAATGGATGG-TTTT-CGCTTA-GAGTTTTCTGAGGAAAACACTCAATTACAAACTGTTTTA
192 TGTCAATGGATGGCTTTTGCG-TCACGA-TTCTC-GAGGTAAACATTCAATTATAATCTGTTTTA
10738425 ATGAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAGAATG--A
254 ATGAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTA-AA-GCAA
* *
10738488 GTAAT-AAGTCTTTCGAAGGCATAAGTGACTATAAATGGACTTTTCTTGT-ATATGGATGGCTTT
317 GTAATAAAG-CTGTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCA-ATGGATGGCTTT
* ** * * * * *
10738551 CGCATCACATTTCTTGAGGCAAATAATCAATTATAATATGTTC-TAACCAAAAATGGAAAACAAA
380 CGCTTCACATTTCTCAAGGTAAACATTCAATTATAATCTGTTCTTAACCAAAAAT-G-TAA-AAA
** * * * **
10738615 AATTCAACTTAAAATCAATAATGAGATTATAAATTCATTTAAAGTGAGCAATACGGCTTTTGAAG
442 AATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAG
*
10738680 GCATGG
507 GCATGA
* * * *
10738686 GTGACTATAAATGGACTTTTCTTATCAATCGATGGCTTTCGCTTCACGTTTC-CTAAGGCAAACA
1 GTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTC-AAGGTAAACA
* * *
10738750 TTCAATTAT-AATTTGTTCTAAC-GAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGAT
65 TT-TATT-TCAATCTGTTTTAACTG-AAAATGT-AAAAAATTCAACTTAAAATCAATAATGAGAT
* ** ** * * *
10738813 TAT-AAAGCATTCGAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGGAC-ATAAATGAACTTTT
126 TATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGGT-GACTATAAATGGACTTTT
* * * * * *
10738876 CTTGTCAATGGATGGCTTTTGCTTCACGTTTCTCGAGGTAAACATTTATTTATAACCT-TTCCTA
190 CTTGTCAATGGATGGCTTTTGCGTCACGATTCTCGAGGTAAACATTCAATTATAATCTGTT-TTA
* * * * *
10738940 ATCG-AAAATGTAAAACATTTTAACTTAAAATCAATAATGAGATTACAAAACCATTTAAAGGGAA
254 AT-GAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAA-GCAA
* * * * **
10739004 -TAACAATGCTTTCAAAGGCATGAGTGACTATAAATACACTTTTCTTGTCAATGGATGGC
317 GTAATAAAGCTGTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGC
10739063 CTTTGTTTCA
Statistics
Matches: 1627, Mismatches: 226, Indels: 127
0.82 0.11 0.06
Matches are distributed among these distances:
509 4 0.00
510 58 0.04
511 189 0.12
512 460 0.28
513 203 0.12
514 299 0.18
515 219 0.13
516 187 0.11
517 8 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (512 bp):
GTGACTATAAATAGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCAAGGTAAACAT
TTATTTCAATCTGTTTTAACTGAAAATGTAAAAAATTCAACTTAAAATCAATAATGAGATTATAA
AACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATAGGTGACTATAAATGGACTTTTCTTGTC
AATGGATGGCTTTTGCGTCACGATTCTCGAGGTAAACATTCAATTATAATCTGTTTTAATGAAAA
ATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATAAAG
CTGTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACATT
TCTCAAGGTAAACATTCAATTATAATCTGTTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAA
TCAATAATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGA
Found at i:10737954 original size:683 final size:680
Alignment explanation
Indices: 10736679--10739072 Score: 2656
Period size: 683 Copynumber: 3.5 Consensus size: 680
10736669 CTGCTTATTG
* * * * * *
10736679 TTTCCCAAGGTAAACATTCAGTTACAATCTATTTTAATGAAAAATGTAAAAACATTCAACTTCAA
1 TTTCCCAAGGTAAACATTCAATT-TAATCTGTTTTAATGAAAAATGTAAAAAAAATCAACTTAAA
* *
10736744 ATCGATAATGAGATTATAAAACCTTTTAAAGCAAGTAATAAGGCTTTCAAAGGCAT-AGGTGACT
65 ATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGA-GTGACT
* *
10736808 ATAAATGGACTTTTCTTTGTACAAGTGGATGGCTTTCGCTTCACGTTTCTTGAGGTAAACATTCA
129 ATAAATGGACTTTTC-TTGT-CAA-TGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAACATTTA
* * * * * **
10736873 ATTATAA-GTTGTTTTAGCGAAAAATGT-AAAAAATTCAACTTAAAATCCGTAATGAGATTATAA
191 ATTACAACCTT-TCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAA
** ** * * *
10736936 AATAATTTAACA-CAAGTAATAAGGCACTCGAAGGCATGAGTGACTATATAT-GAAATTTTCTTG
255 AACCATTTAA-AGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGAACTTTTCTTG
* * * * * * *
10736999 TCAATTGATGGCTTTTGCTTCAAGTTTCCCAAGGTAAACATTTAATTATAATCTGTTTTAATCAA
319 TCAATGGATGGCTTTTGCTTCAAGTTTCTCAAGGAAAACATTTATTTCTAAACTGTTTTAAT-GA
* * * *
10737064 AAATGTAAACAAATTCAACATAAAACCAATAATGAGATTATAAAACAATTTAAAGCGAGTAATAA
383 AAATGTAAA-AAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAGGCGAGTAATAA
* * *
10737129 GCCTTTCGAAGGCAT-GAGTGACTATAAATAGACTTTTCTTTTCAATGGATGGCTTTCGCTTCAC
447 GCCTTTCGAAGGCATAG-GTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCATCAC
* * * * *
10737193 GTTTCTTGAGATAAACATTTATTTCA-AATCTTTTAAACCG-AAAATGT-AAAAAATTCAACTTA
511 GATTCTTGAGGTAAACATTCAATT-ATAATCTTTTTAA-CGAAAAATGTAAAAAAATTCAACTTA
* *
10737255 AAATTAATAATGAGATTATTAAACCATTTAAAGAGAGTAATAAGGCTTTCAAAGGCATGAGTGAC
574 AAATCAATAATGAGATTATTAAACCATTTAAAGAGAGTAATAAGGCTTTCGAAGGCATGAGTGAC
* *
10737320 TATAAATGGATATTTCTTGTCAATGGATGGCTTACGCTTAATA
639 TATAAATGGATATTTCTTGTCAATGGATGGCTT-CGCTTCACA
* *
10737363 TTTCCCGAGGTAAACATTCAATTTCAATCTGTTTTAAGGAAAAATGTAAAAAAAATCAACTTAAA
1 TTTCCCAAGGTAAACATTCAATTT-AATCTGTTTTAATGAAAAATGTAAAAAAAATCAACTTAAA
* ** * * *
10737428 ATCAATAATGAGATTATAAAACCGTTTAAAGCAAGTAATAAAACTGTCGAAGGCATGAATGACTA
65 ATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTA
* * * ** * *
10737493 GAAATGGACCTTTCTTGTTAATGGATGGCTTTCGCTTTGCGTTTCTCAAGGTAAACATTTATTTA
130 TAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAACATTTAATTA
10737558 CAACCTTTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCA
195 CAACCTTTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCA
*
10737623 TTTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAG-ACTTTTCTTGTCAAT
260 -TTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGAACTTTTCTTGTCAAT
* * * *
10737687 GGATGGCTTTTGCTTCACGTTTCTCAAGGCAAACATTTATTTCTAACCT-TTCTTAACTGAAATT
324 GGATGGCTTTTGCTTCAAGTTTCTCAAGGAAAACATTTATTTCTAAACTGTT-TTAA-TGAAAAT
* * * *
10737751 GTAAAAATATTTAACTTAAAATCAATAATGAGTTTATAAAACCATTTAAGGCGATTAATAAGGCT
387 GTAAAAA-ATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAGGCGAGTAATAAGCCT
* * ** * *
10737816 TTCAAAGGTATAGGTGACTATAAATGGACTTTTCTTGTCAATGGATAACTTTTGCGTCACGATTC
451 TTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCATCACGATTC
** * *
10737881 TCAAGGTTAACATTCAATTATAGTCTATTTTAA-GAAAAATGTAAAAAAATTCAACTT-AAATCA
516 TTGAGGTAAACATTCAATTATAATCT-TTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCA
* * * * * *
10737944 ATAATGAGATTATAAAACCGTTTAAA-ACAAGTAATAAAGCTGTCGAAGGCATGAGTGACTAGAA
580 ATAATGAGATTATTAAACCATTTAAAGA-GAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAA
* *
10738008 ATGGATCA-TTCTTGTAAATGGATGGCGTTTGCTTCACA
644 ATGGAT-ATTTCTTGTCAATGGATGGC-TTCGCTTCACA
* * * *
10738046 TTTCTCGAGATAAACATTCAACTGTAAGT-TGTTTTAATGAAAAATGTAAAAAAAATTCAACTTA
1 TTTCCCAAGGTAAACATTCAA-TTTAA-TCTGTTTTAATGAAAAATGTAAAAAAAA-TCAACTTA
** * *
10738110 AAATCAGCATTGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGCATGAGTGAC
63 AAATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGAC
* * * *
10738175 TATAAATGGAATTTGT-TTGTGAATGGATGGCTTTCGCTACACGTTTCTCGACGTAAACATTTAA
128 TATAAATGGACTTT-TCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAACATTTAA
* * * *
10738239 TTACAATCTGTT-TTAACAAAAAATGTAAAAAATTTCAACATAAAATCAATAATGAGATTATAAA
192 TTACAACCT-TTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAA
* * * * * *
10738303 ACCATTTAAAGCAAGTAATAAGGATTTCGAAGGCATGGGTGACTATAAATGGTA-TTTTCTTGTT
256 ACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGAACTTTTCTTGTC
* ** *
10738367 AATGGATGG-TTTTCGCTT-AGAGTTT-TCTGAGGAAAACACTCAATTAC-AAACTGTTTTAATG
321 AATGGATGGCTTTT-GCTTCA-AGTTTCTC-AAGGAAAACA-TTTATTTCTAAACTGTTTTAATG
**
10738428 AAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTT-AGAATGAGTAA
382 -AAAATGT-AAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAG-GCGAGTAA
* *
10738492 TAAGTCTTTCGAAGGCATAAGTGACTATAAATGGACTTTTCTTGT-ATATGGATGGCTTTCGCAT
444 TAAGCCTTTCGAAGGCATAGGTGACTATAAATGGACTTTTCTTGTCA-ATGGATGGCTTTCGCAT
* * * * * * *
10738556 CAC-ATTTCTTGAGGCAAATAATCAATTATAATATGTTCTAACCAAAAATGGAAAACAAAAATTC
508 CACGA-TTCTTGAGGTAAACATTCAATTATAATCT-TTTTAACGAAAAAT-G-TAA-AAAAATTC
* * * * *
10738620 AACTTAAAATCAATAATGAGATTA-TAAATTCATTTAAAGTGAGCAATACGGCTTTTGAAGGCAT
568 AACTTAAAATCAATAATGAGATTATTAAA-CCATTTAAAGAGAGTAATAAGGCTTTCGAAGGCAT
* * * *
10738684 GGGTGACTATAAATGGACT-TTTCTTATCAATCGATGGCTTTCGCTTCACG
632 GAGTGACTATAAATGGA-TATTTCTTGTCAATGGATGGC-TTCGCTTCACA
* * * * * *
10738734 TTTCCTAAGGCAAACATTCAATTATAATTTGTTCTAACGAAAAATGTAAAAAAATTCAACTTAAA
1 TTTCCCAAGGTAAACATTCAATT-TAATCTGTTTTAATGAAAAATGTAAAAAAAATCAACTTAAA
* ** * ** * *
10738799 ATCAATAATGAGATTAT-AAAGCATTCGAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGGAC-
65 ATCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGT-GACT
* * *
10738862 ATAAATGAACTTTTCTTGTCAATGGATGGCTTTTGCTTCACGTTTCTCGAGGTAAACATTTATTT
129 ATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAACATTTAATT
* * * * * * * *
10738927 ATAACCTTTCCTAATCGAAAATGTAAAACATTTTAACTTAAAATCAATAATGAGATTACAAAACC
194 ACAACCTTTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACC
* * * *
10738992 ATTTAAAGGGAA-TAACAATGCTTTCAAAGGCATGAGTGACTATAAATA-CACTTTTCTTGTCAA
259 ATTTAAA-GCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGAACTTTTCTTGTCAA
* *
10739055 TGGATGGCCTTTGTTTCA
323 TGGATGGCTTTTGCTTCA
10739073 TNNNNNNNNN
Statistics
Matches: 1441, Mismatches: 217, Indels: 101
0.82 0.12 0.06
Matches are distributed among these distances:
681 53 0.04
682 62 0.04
683 590 0.41
684 347 0.24
685 9 0.01
686 203 0.14
687 52 0.04
688 124 0.09
689 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (680 bp):
TTTCCCAAGGTAAACATTCAATTTAATCTGTTTTAATGAAAAATGTAAAAAAAATCAACTTAAAA
TCAATAATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTAT
AAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAACATTTAATTAC
AACCTTTCTTAACCAAAAATGTAAAAAAATTCAACTTAAAATCAATAATGAGATTATAAAACCAT
TTAAAGCAAGTAATAAGGCTTTCAAAGGCATGAGTGACTATAAATAGAACTTTTCTTGTCAATGG
ATGGCTTTTGCTTCAAGTTTCTCAAGGAAAACATTTATTTCTAAACTGTTTTAATGAAAATGTAA
AAAATTCAACTTAAAATCAATAATGAGATTATAAAACCATTTAAGGCGAGTAATAAGCCTTTCGA
AGGCATAGGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCATCACGATTCTTGAG
GTAAACATTCAATTATAATCTTTTTAACGAAAAATGTAAAAAAATTCAACTTAAAATCAATAATG
AGATTATTAAACCATTTAAAGAGAGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGATA
TTTCTTGTCAATGGATGGCTTCGCTTCACA
Found at i:10740472 original size:42 final size:41
Alignment explanation
Indices: 10740407--10740543 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 41
10740397 TTATGCGCAT
*
10740407 ATAGCCGGGTCAGCAACGACTTATGTGCACTCCCACTCACAC
1 ATAGCCGGGTCAGCAACG-CTTATGTGCACTCCTACTCACAC
*
10740449 ATAGTCGGGTCAGCAACAGCTTATGTGCACTCCTACTCACAC
1 ATAGCCGGGTCAGCAAC-GCTTATGTGCACTCCTACTCACAC
10740491 ATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACTCACAC
1 ATAGCCGGGTCAGCAAC-GCTTATGTGCACTCCTACTCACAC
*
10740533 ATAGCCTGGTC
1 ATAGCCGGGTC
10740544 CAAATCAACA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 88 0.99
43 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (41 bp):
ATAGCCGGGTCAGCAACGCTTATGTGCACTCCTACTCACAC
Found at i:10744995 original size:20 final size:20
Alignment explanation
Indices: 10744978--10745015 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10744968 CCTCAAATCT
10744978 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
10744998 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
10745016 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:10753576 original size:20 final size:20
Alignment explanation
Indices: 10753551--10753596 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10753541 CTTGTAAACC
10753551 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
10753571 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
10753591 TCAAAT
1 TCAAAT
10753597 GGGTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:10761547 original size:20 final size:20
Alignment explanation
Indices: 10761522--10761567 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10761512 CTTCTAAACC
10761522 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
10761542 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
10761562 TCAAAT
1 TCAAAT
10761568 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:10763265 original size:2 final size:2
Alignment explanation
Indices: 10763260--10763284 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10763250 TTGTGTTATC
10763260 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10763285 GGTTTGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10773975 original size:15 final size:15
Alignment explanation
Indices: 10773951--10773980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10773941 AACCTAATCA
*
10773951 AACTTTACTTAACTT
1 AACTTGACTTAACTT
10773966 AACTTGACTTAACTT
1 AACTTGACTTAACTT
10773981 GGGGCCACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.43
Consensus pattern (15 bp):
AACTTGACTTAACTT
Found at i:10777583 original size:42 final size:42
Alignment explanation
Indices: 10777524--10777640 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 42
10777514 GTGATAATTA
*
10777524 TGACCCAGCCATGTGCGGTGTAGGAGTGCACGTGAGCTGTGC
1 TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* *
10777566 TGACCCAGCCATGTGCGGTGTATGAGTGAACATGAGCTGTGC
1 TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* * *
10777608 TGACCCCGCTATGTGCTGTGT-GGTAGTGCACAT
1 TGACCCAGCCATGTGCGGTGTAGG-AGTGCACAT
10777641 AAGTTGAGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (42 bp):
TGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
Found at i:10779759 original size:25 final size:26
Alignment explanation
Indices: 10779711--10779760 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
10779701 ACGTTAAACA
* *
10779711 TTTATTTTATTTTTTATTATTATTTC
1 TTTACTTTATTTTTTATTAGTATTTC
10779737 TTTACTTTATTTTTT-TTAGTATTT
1 TTTACTTTATTTTTTATTAGTATTT
10779761 GGTTACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTACTTTATTTTTTATTAGTATTTC
Found at i:10779766 original size:25 final size:26
Alignment explanation
Indices: 10779716--10779766 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
10779706 AAACATTTAT
* *
10779716 TTTATTTTTTATTATTATTTCTTTAC
1 TTTATTTTTTATTAGTATTTCGTTAC
*
10779742 TTTATTTTTT-TTAGTATTTGGTTAC
1 TTTATTTTTTATTAGTATTTCGTTAC
10779767 AATTGTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTATTTTTTATTAGTATTTCGTTAC
Found at i:10779979 original size:30 final size:33
Alignment explanation
Indices: 10779945--10780023 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 33
10779935 TAAATATAAT
10779945 TTTTTATATTTTCTATAACT-TCTTTA-TA-TA
1 TTTTTATATTTTCTATAACTATCTTTATTATTA
* *
10779975 TTTTTACTA-TTTCTATTACTATTTTTATTATTA
1 TTTTTA-TATTTTCTATAACTATCTTTATTATTA
10780008 TTATTTAT-TTTTCTAT
1 TT-TTTATATTTTCTAT
10780024 TTATTTTAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
30 16 0.39
31 7 0.17
32 2 0.05
33 12 0.29
34 4 0.10
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (33 bp):
TTTTTATATTTTCTATAACTATCTTTATTATTA
Found at i:10779997 original size:21 final size:18
Alignment explanation
Indices: 10779967--10780029 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 18
10779957 CTATAACTTC
*
10779967 TTTATATATTTTTACTAT
1 TTTATTTATTTTTACTAT
*
10779985 TTCTATTACTATTTTTATTAT
1 TT-TATT--TATTTTTACTAT
10780006 TATTATTTATTTTT-CTA-
1 T-TTATTTATTTTTACTAT
10780023 TTTATTT
1 TTTATTT
10780030 TAACTTCTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
16 6 0.16
17 1 0.03
18 4 0.11
19 10 0.26
21 16 0.42
22 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTATTTTTACTAT
Found at i:10793426 original size:42 final size:42
Alignment explanation
Indices: 10793361--10793441 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
10793351 GTTGATTTGA
10793361 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
10793403 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
10793442 TTGCCTCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.22
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:10793712 original size:26 final size:26
Alignment explanation
Indices: 10793676--10793737 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10793666 TTGCATATGA
10793676 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10793702 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
10793728 GTTGATGATG
1 GATGATGATG
10793738 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:10796225 original size:74 final size:74
Alignment explanation
Indices: 10796097--10796299 Score: 243
Period size: 74 Copynumber: 2.7 Consensus size: 74
10796087 ATTTTCAGAC
* * *
10796097 AGTGAGCTCTTAGTTGACTAACATGCTTCTTAGTCGACTAAGTCGTCTCTGTCTTCTAATCT-CA
1 AGTGAGCTCTTAGTTGACTAACATGCTTCTTAGTCAACTAAGTCGTCTTTGTCTTCTAAT-TGAA
*
10796161 GTTTTTGG-A
65 GTTTCTGGCA
* * *
10796170 AGTGAGCTCTTAGTTGACTAACAATGCTTTTTAGTCAATTAAGTTC-TCTTTGTCTTGTAATTGA
1 AGTGAGCTCTTAGTTGACTAAC-ATGCTTCTTAGTCAACTAAG-TCGTCTTTGTCTTCTAATTGA
10796234 AGTTTCTGGCA
64 AGTTTCTGGCA
* * * *
10796245 A-TGAGCACTTAGTCGACTAACCATGCTTCTTAGTCAAGTAAGTCTTCTTTGTCTT
1 AGTGAGCTCTTAGTTGACTAA-CATGCTTCTTAGTCAACTAAGTCGTCTTTGTCTT
10796300 TGAACCGGCC
Statistics
Matches: 113, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
73 25 0.22
74 83 0.73
75 5 0.04
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (74 bp):
AGTGAGCTCTTAGTTGACTAACATGCTTCTTAGTCAACTAAGTCGTCTTTGTCTTCTAATTGAAG
TTTCTGGCA
Found at i:10803971 original size:18 final size:19
Alignment explanation
Indices: 10803935--10803972 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10803925 TGCAGTGAAA
*
10803935 AGGAATTTTCACTGTAGCG
1 AGGAATTTTCACTGCAGCG
*
10803954 AGGAA-TTTCGCTGCAGCG
1 AGGAATTTTCACTGCAGCG
10803972 A
1 A
10803973 AAATGGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (19 bp):
AGGAATTTTCACTGCAGCG
Found at i:10808539 original size:39 final size:39
Alignment explanation
Indices: 10808484--10808571 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
10808474 CGAGATTCAA
*
10808484 TCTCGCTGCAGTGAAATTGTAACCCAGAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTGTAACCCAGAAACAGAAAGTT
* * *
10808523 TCTCGTTGCAGCGAAATTTTAACCTAGAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTGTAACCCAGAAACAGAAAGTT
*
10808562 TCTCACTGCA
1 TCTCGCTGCA
10808572 ACGAGAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTGTAACCCAGAAACAGAAAGTT
Found at i:10808687 original size:21 final size:21
Alignment explanation
Indices: 10808663--10808715 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10808653 ACCTGAAAGT
*
10808663 TTCTCATTGCAACGAAAATGA
1 TTCTCACTGCAACGAAAATGA
* *
10808684 TTCTCACTGTAGCGAAAATGA
1 TTCTCACTGCAACGAAAATGA
*
10808705 TTCTCGCTGCA
1 TTCTCACTGCA
10808716 GCCAGAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
TTCTCACTGCAACGAAAATGA
Found at i:10816239 original size:43 final size:44
Alignment explanation
Indices: 10816191--10816328 Score: 158
Period size: 43 Copynumber: 3.2 Consensus size: 44
10816181 TGTTGTGTGA
* * *
10816191 TAATGATGACCCAGTTATGTGCGATGT-GGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGAAGTAGGGAGTGCACATAAGC
**
10816234 TAATGATGACCCAGCTATGTGC-AAGTAGGGAGTGGGCATAAGC
1 TAATGATGACCCAGCTATGTGCGAAGTAGGGAGTGCACATAAGC
* *
10816277 TAATGATGA-CCAGGCTATGTGCG-AGTAAGGAGTGCTCATAAGC
1 TAATGATGACCCA-GCTATGTGCGAAGTAGGGAGTGCACATAAGC
**
10816320 CCATGATGA
1 TAATGATGA
10816329 TGACCCGGCT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 6 0.07
43 76 0.93
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (44 bp):
TAATGATGACCCAGCTATGTGCGAAGTAGGGAGTGCACATAAGC
Found at i:10819639 original size:21 final size:20
Alignment explanation
Indices: 10819606--10819644 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10819596 AAATTTTAAA
*
10819606 TTAGTTTATTTTTAATTTAT
1 TTAGTTTAATTTTAATTTAT
10819626 TTAGTTATAATTTTAATTT
1 TTAGTT-TAATTTTAATTT
10819645 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTAGTTTAATTTTAATTTAT
Found at i:10822308 original size:13 final size:12
Alignment explanation
Indices: 10822292--10822330 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
10822282 CTTTTTCCAC
10822292 TCTTTTTTATTTA
1 TCTTTTTT-TTTA
10822305 TCTTTTTTTTTAA
1 TCTTTTTTTTT-A
*
10822318 TCTCTTTTTTTA
1 TCTTTTTTTTTA
10822330 T
1 T
10822331 GGTATTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (12 bp):
TCTTTTTTTTTA
Found at i:10840461 original size:19 final size:20
Alignment explanation
Indices: 10840434--10840479 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10840424 AGGAGACAAG
*
10840434 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
10840453 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
10840472 ATAATATT
1 ATAATATT
10840480 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:10840909 original size:20 final size:20
Alignment explanation
Indices: 10840884--10840921 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10840874 TTTGGGCCCT
10840884 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
10840904 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
10840922 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10840927 original size:20 final size:20
Alignment explanation
Indices: 10840884--10840929 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10840874 TTTGGGCCCT
*
10840884 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
10840904 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
10840924 ATTTGA
1 ATTTGA
10840930 GGTTTATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:10845875 original size:15 final size:16
Alignment explanation
Indices: 10845855--10845895 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
10845845 CAGAGATTTT
10845855 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
10845870 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
10845886 G-TTTTAAAGT
1 GATTTTAAAGT
10845896 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:10845896 original size:15 final size:15
Alignment explanation
Indices: 10845851--10845896 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
10845841 ATATCAGAGA
*
10845851 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
10845865 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
10845881 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
10845896 T
1 T
10845897 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:10845956 original size:14 final size:15
Alignment explanation
Indices: 10845931--10845963 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10845921 TGCGTGGCCC
10845931 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
10845946 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
10845960 AAGT
1 AAGT
10845964 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:10845970 original size:19 final size:19
Alignment explanation
Indices: 10845932--10845971 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10845922 GCGTGGCCCA
*
10845932 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
10845951 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
10845970 AG
1 AG
10845972 GTAGAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:10845973 original size:5 final size:5
Alignment explanation
Indices: 10845931--10845963 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
10845921 TGCGTGGCCC
10845931 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
10845964 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:10852955 original size:72 final size:71
Alignment explanation
Indices: 10852838--10852972 Score: 225
Period size: 72 Copynumber: 1.9 Consensus size: 71
10852828 AGCCAAAAAC
10852838 AAGAACCCTTACCTTTCCTTGCTTGAATAACAAAAACCAAGCTTTTTCTTCCTTTCTCTCTTTTT
1 AAGAACCCTTACCTTTCCTTGCTTGAATAACAAAAACCAAGCTTTTTCTTCCTTTCTCTCTTTTT
10852903 CTTTCT
66 CTTTCT
* * * *
10852909 NAAGAATCCTTACCTTTCCTTGCTTGAATCACCAAAACCAAGCTTTTTCTTCCTTTCTTTCTTT
1 -AAGAACCCTTACCTTTCCTTGCTTGAATAACAAAAACCAAGCTTTTTCTTCCTTTCTCTCTTT
10852973 CCTTTCTCCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.43
Consensus pattern (71 bp):
AAGAACCCTTACCTTTCCTTGCTTGAATAACAAAAACCAAGCTTTTTCTTCCTTTCTCTCTTTTT
CTTTCT
Found at i:10852984 original size:20 final size:20
Alignment explanation
Indices: 10852954--10853007 Score: 99
Period size: 20 Copynumber: 2.6 Consensus size: 20
10852944 AACCAAGCTT
10852954 TTTCTTCCTTTCTTTCTTTCC
1 TTTC-TCCTTTCTTTCTTTCC
10852975 TTTCTCCTTTCTTTCTTTCC
1 TTTCTCCTTTCTTTCTTTCC
10852995 TTTCTCCTTTCTT
1 TTTCTCCTTTCTT
10853008 CCAACTGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTCCTTTCTTTCTTTCC
Found at i:10852999 original size:13 final size:13
Alignment explanation
Indices: 10852954--10852998 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
10852944 AACCAAGCTT
10852954 TTTC-TTCCTTTC
1 TTTCTTTCCTTTC
10852966 TTTCTTTCCTTTC
1 TTTCTTTCCTTTC
*
10852979 -TCCTTT-CTTTC
1 TTTCTTTCCTTTC
10852990 TTTCCTTTC
1 TTT-CTTTC
10852999 TCCTTTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 5 0.19
12 10 0.37
13 12 0.44
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTCTTTCCTTTC
Found at i:10854847 original size:15 final size:16
Alignment explanation
Indices: 10854827--10854864 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10854817 GTTCTCTTGC
*
10854827 ATTTATTATTATTA-T
1 ATTTATTATTATCATT
10854842 ATTTATTATTATCATT
1 ATTTATTATTATCATT
10854858 ATTTATT
1 ATTTATT
10854865 TTTGTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTATTATTATCATT
Found at i:10855439 original size:22 final size:20
Alignment explanation
Indices: 10855401--10855441 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
10855391 TATATATATT
10855401 TTTATATTTTCTATATTTTC
1 TTTATATTTTCTATATTTTC
*
10855421 TTTATATGTTTTTACTATTTT
1 TTTATAT-TTTCTA-TATTTT
10855442 TATTACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTATATTTTCTATATTTTC
Found at i:10856082 original size:30 final size:30
Alignment explanation
Indices: 10856041--10856109 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
10856031 CAAAACTCAG
10856041 TCATACATTCATAATGGCATCAACAACCAA
1 TCATACATTCATAATGGCATCAACAACCAA
* * *
10856071 TCATACCTTCATAATGGCATTAACAACCAT
1 TCATACATTCATAATGGCATCAACAACCAA
10856101 TACATACAT
1 T-CATACAT
10856110 ATATAGATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 28 0.82
31 6 0.18
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.28
Consensus pattern (30 bp):
TCATACATTCATAATGGCATCAACAACCAA
Found at i:10856753 original size:12 final size:13
Alignment explanation
Indices: 10856731--10856759 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10856721 AATTTATGAC
10856731 TATTAGAATAAAA
1 TATTAGAATAAAA
10856744 TATT-GAATAAAA
1 TATTAGAATAAAA
10856756 TATT
1 TATT
10856760 CAATTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
TATTAGAATAAAA
Found at i:10861474 original size:27 final size:27
Alignment explanation
Indices: 10861433--10861494 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
10861423 TCTCCCCATC
10861433 TTCTTTTTATTGGGCCATGCCCA-TTT
1 TTCTTTTTATTGGGCCATGCCCACTTT
*
10861459 TTCTTTCTTGTTGGGCCATGCCCACTTT
1 TTCTTT-TTATTGGGCCATGCCCACTTT
*
10861487 GTCTTTTT
1 TTCTTTTT
10861495 TTTTTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 6 0.19
27 18 0.56
28 8 0.25
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (27 bp):
TTCTTTTTATTGGGCCATGCCCACTTT
Found at i:10870036 original size:25 final size:25
Alignment explanation
Indices: 10869973--10870025 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10869963 ATTTTAACCT
*
10869973 TATA-TATG-ATAATAAATTTTATA
1 TATATTATGTATATTAAATTTTATA
*
10869996 TATATTATTTATATTAAATTTTAT-
1 TATATTATGTATATTAAATTTTATA
10870020 TATATT
1 TATATT
10870026 TGATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 9 0.35
25 13 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TATATTATGTATATTAAATTTTATA
Found at i:10870171 original size:18 final size:18
Alignment explanation
Indices: 10870123--10870163 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
10870113 ATATTTTTAT
10870123 TTAATCGTATTAAACATG
1 TTAATCGTATTAAACATG
*
10870141 TTAATCGTATTAATCATG
1 TTAATCGTATTAAACATG
10870159 TTAAT
1 TTAAT
10870164 TGTGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (18 bp):
TTAATCGTATTAAACATG
Found at i:10870186 original size:18 final size:18
Alignment explanation
Indices: 10870165--10870199 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10870155 CATGTTAATT
*
10870165 GTGTTAAATGTATTATTC
1 GTGTTAAACGTATTATTC
10870183 GTGTTAAACGTATTATT
1 GTGTTAAACGTATTATT
10870200 ATTCGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (18 bp):
GTGTTAAACGTATTATTC
Found at i:10873145 original size:29 final size:29
Alignment explanation
Indices: 10873103--10873164 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
10873093 GCCCACTTTA
*
10873103 AACTAGGGTGTACTATCAATAGAAACAAG
1 AACTAGGGTGTACTACCAATAGAAACAAG
10873132 AACTAGGGTGTACTACCAATAGAAACAAG
1 AACTAGGGTGTACTACCAATAGAAACAAG
10873161 AACT
1 AACT
10873165 CTAGTTTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (29 bp):
AACTAGGGTGTACTACCAATAGAAACAAG
Found at i:10882769 original size:21 final size:21
Alignment explanation
Indices: 10882744--10882797 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
10882734 AGTTTTTAAG
* *
10882744 CATTGCGTGATTGACTTTGGA
1 CATTGCGTGACTGACTCTGGA
*
10882765 CATTGCATGACTGACTCTGGA
1 CATTGCGTGACTGACTCTGGA
10882786 CATTGCGTGACT
1 CATTGCGTGACT
10882798 AGTTTTTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (21 bp):
CATTGCGTGACTGACTCTGGA
Found at i:10882847 original size:26 final size:27
Alignment explanation
Indices: 10882786--10882849 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
10882776 TGACTCTGGA
10882786 CATTGCGTGACTAGTTTTTGATAAGGT
1 CATTGCGTGACTAGTTTTTGATAAGGT
* *
10882813 -TTTACGTGACTAGTTTTTGATAA-GT
1 CATTGCGTGACTAGTTTTTGATAAGGT
*
10882838 CATTGTGTGACT
1 CATTGCGTGACT
10882850 TGTTAGCAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.44
Consensus pattern (27 bp):
CATTGCGTGACTAGTTTTTGATAAGGT
Found at i:10882893 original size:23 final size:23
Alignment explanation
Indices: 10882838--10882895 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
10882828 TTTGATAAGT
*
10882838 CATTGTGTGACTTGTTAGCAAGG
1 CATTGTGTGACTAGTTAGCAAGG
** * **
10882861 CATTACGTGAGTAGTTAGTTAGG
1 CATTGTGTGACTAGTTAGCAAGG
10882884 CATTGTGTGACT
1 CATTGTGTGACT
10882896 TAGGCATTAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.36
Consensus pattern (23 bp):
CATTGTGTGACTAGTTAGCAAGG
Found at i:10882933 original size:22 final size:23
Alignment explanation
Indices: 10882905--10882988 Score: 95
Period size: 22 Copynumber: 3.8 Consensus size: 23
10882895 TTAGGCATTA
*
10882905 CTTAAAAATCAATCACGCAA-GC
1 CTTAAAAACCAATCACGCAATGC
* *
10882927 CTTAAAAACCAGTCACGTAATGC
1 CTTAAAAACCAATCACGCAATGC
*
10882950 C-T-AAAACCAATCACGTAATG-
1 CTTAAAAACCAATCACGCAATGC
*
10882970 TTTAAAAACCAATCACGCA
1 CTTAAAAACCAATCACGCA
10882989 GTGATTAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.34
22 32 0.60
23 3 0.06
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (23 bp):
CTTAAAAACCAATCACGCAATGC
Found at i:10893661 original size:30 final size:31
Alignment explanation
Indices: 10893627--10893695 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
10893617 ACTTCTTATT
*
10893627 TTTTTATATTTTTATCTT-AAATTATATAAA
1 TTTTTATATTTTTATCTTGAAATTAAATAAA
*
10893657 TTTTTATATTTTTATTTTGAAATTAAATAAA
1 TTTTTATATTTTTATCTTGAAATTAAATAAA
10893688 TTTTTATA
1 TTTTTATA
10893696 ATTAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 17 0.47
31 19 0.53
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (31 bp):
TTTTTATATTTTTATCTTGAAATTAAATAAA
Found at i:10900160 original size:21 final size:21
Alignment explanation
Indices: 10900118--10900160 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10900108 CTTGTACCGG
*
10900118 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
10900139 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
10900160 T
1 T
10900161 TGACCAGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:10908967 original size:48 final size:48
Alignment explanation
Indices: 10908896--10908992 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
10908886 TTTCAAAGTT
* * *
10908896 GAATTTTGGAGTTCATATTTATATTGTT-GGTTGGGTTTGTTGAAATGG
1 GAATTTAGGAGTTCATATTTATATT-TTGGGTTAGGTTTGGTGAAATGG
*
10908944 GAATTTAGGAGTTTATATTTATATTTTGGGTTAGGTTTGGTGAAATGG
1 GAATTTAGGAGTTCATATTTATATTTTGGGTTAGGTTTGGTGAAATGG
10908992 G
1 G
10908993 TCATTGCATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.05
48 42 0.95
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (48 bp):
GAATTTAGGAGTTCATATTTATATTTTGGGTTAGGTTTGGTGAAATGG
Found at i:10912360 original size:28 final size:29
Alignment explanation
Indices: 10912319--10912378 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10912309 GTCTATGGGC
*
10912319 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
10912347 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
10912377 AA
1 AA
10912379 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:10912665 original size:20 final size:20
Alignment explanation
Indices: 10912640--10912678 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10912630 GGAAGAAGAA
10912640 AAGAAAAACCAAAGAGAAAC
1 AAGAAAAACCAAAGAGAAAC
**
10912660 AAGAAAATTCAAAGAGAAA
1 AAGAAAAACCAAAGAGAAA
10912679 TTCGCGGTTT
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:0.69, C:0.10, G:0.15, T:0.05
Consensus pattern (20 bp):
AAGAAAAACCAAAGAGAAAC
Found at i:10921469 original size:187 final size:186
Alignment explanation
Indices: 10921153--10921525 Score: 714
Period size: 187 Copynumber: 2.0 Consensus size: 186
10921143 TTCAAGGACC
*
10921153 TATCAAGGTATGGGTACCTATTAAGAAAAATTGAAAATCTATTTTGCAAGTTGAGCTAAATCTAA
1 TATCAAGGAATGGGTACCTATTAAGAAAAATTGAAAATCTATTTTGCAAGTTGAGCTAAATCTAA
10921218 AAGACACATGTTCAAGAGCTCAACTAAAGGAGAAAGAGCCATGGTTTATGGATAATGGATGCTCA
66 AAGACACATGTTCAAGAGCTCAACTAAAGGAGAAAGAGCCATGGTTTATGGATAATGGATGCTCA
10921283 AGGCACATGAATGGAAATGAAATGCTGTTTGCTTAGCTAGACAAGAAAAAGGGAGG
131 AGGCACATGAATGGAAATGAAATGCTGTTTGCTTAGCTAGACAAGAAAAAGGGAGG
10921339 TNATCAAGGAATGGGTACCTATTAAGAAAAATTGAAAATCTATTTTGCAAGTTGAGCTAAATCTA
1 T-ATCAAGGAATGGGTACCTATTAAGAAAAATTGAAAATCTATTTTGCAAGTTGAGCTAAATCTA
10921404 AAAGACACATGTTCAAGAGCTCAACTAAAGGAGAAAGAGCCATGGTTTATGGATAATGGATGCTC
65 AAAGACACATGTTCAAGAGCTCAACTAAAGGAGAAAGAGCCATGGTTTATGGATAATGGATGCTC
10921469 AAGGCACATGAATGGAAATGAAATGCTGTTTGCTTAGCTAGACAAG-AAAA-GGAGG
130 AAGGCACATGAATGGAAATGAAATGCTGTTTGCTTAGCTAGACAAGAAAAAGGGAGG
10921524 TA
1 TA
10921526 CCATTTCCTT
Statistics
Matches: 185, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
184 1 0.01
185 6 0.03
186 5 0.03
187 173 0.94
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (186 bp):
TATCAAGGAATGGGTACCTATTAAGAAAAATTGAAAATCTATTTTGCAAGTTGAGCTAAATCTAA
AAGACACATGTTCAAGAGCTCAACTAAAGGAGAAAGAGCCATGGTTTATGGATAATGGATGCTCA
AGGCACATGAATGGAAATGAAATGCTGTTTGCTTAGCTAGACAAGAAAAAGGGAGG
Found at i:10923898 original size:179 final size:178
Alignment explanation
Indices: 10923597--10923954 Score: 637
Period size: 179 Copynumber: 2.0 Consensus size: 178
10923587 CTATCCACAA
*
10923597 TTTTGCATCTAAATAAAATATACATATATTTATATTATTATGGAAATTTTAAAATTGACACCCTC
1 TTTTGCATCTAAATAAAATATACATATATTTATATTATTATGGAAATTTTAAAATTGACACCCCC
**
10923662 TACTCACCTCACAATAGTGAGATGTTACTTCACTATTTCTACTTGTCGGTCACTCATTATTTCCT
66 TACTCACCTCACAATACAGAGATGTTACTTCACTATTTCTACTTGTCGGTCACTCATTATTTCCT
10923727 CTAACCTGCCTTCACAGTGCACTATCTTTATTTATTTCTTTTGAATCT
131 CTAACCTGCCTTCACAGTGCACTATCTTTATTTATTTCTTTTGAATCT
10923775 TNTTTGCATCTAAATAAAATATACATATATTTATATTATTATGGAAATTTTAAAATTGACACCCC
1 T-TTTGCATCTAAATAAAATATACATATATTTATATTATTATGGAAATTTTAAAATTGACACCCC
* **
10923840 CTACTCACCTCACAGTAACAG-GATGTTACTTCGTTATTTCTACTTGTCGGTCACTCATTATTTC
65 CTACTCACCTCACAAT-ACAGAGATGTTACTTCACTATTTCTACTTGTCGGTCACTCATTATTTC
10923904 CTCTAACCTGCCTTCACAGTGCACTATCTTTATTTATTTCTTTTGAATCT
129 CTCTAACCTGCCTTCACAGTGCACTATCTTTATTTATTTCTTTTGAATCT
10923954 T
1 T
10923955 GCAACCCACT
Statistics
Matches: 172, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
178 1 0.01
179 169 0.98
180 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (178 bp):
TTTTGCATCTAAATAAAATATACATATATTTATATTATTATGGAAATTTTAAAATTGACACCCCC
TACTCACCTCACAATACAGAGATGTTACTTCACTATTTCTACTTGTCGGTCACTCATTATTTCCT
CTAACCTGCCTTCACAGTGCACTATCTTTATTTATTTCTTTTGAATCT
Found at i:10923975 original size:2 final size:2
Alignment explanation
Indices: 10923968--10924043 Score: 79
Period size: 2 Copynumber: 40.0 Consensus size: 2
10923958 ACCCACTTGA
*
10923968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
10924009 A- AT -T TT TT AT TT TT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10924044 TTTTTTTTCT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
1 4 0.06
2 61 0.94
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:10924326 original size:70 final size:71
Alignment explanation
Indices: 10924160--10924326 Score: 203
Period size: 70 Copynumber: 2.4 Consensus size: 71
10924150 GCACAACCTT
* * * *
10924160 TCCTTTTTCCCTCACATACCCAACA-ACAAAACCCTTCATTTCTCTCTCTAAAACCAGCAGCAAC
1 TCCTTTCTCCCTCACAAACCCGACAGCCAAAACCCTTCATTTCTCTCTCTAAAACCAGCAGCAAC
10924224 AACTCC
66 AACTCC
* * ** * * * * *
10924230 TCGTTTCTTCCTCACAAAGTCGACAGCCAAATCCCTT-TTTTCTCTCTCTCAAACTAGTAGCAAC
1 TCCTTTCTCCCTCACAAACCCGACAGCCAAAACCCTTCATTTCTCTCTCTAAAACCAGCAGCAAC
10924294 AACTCC
66 AACTCC
10924300 TCCTTTCTCCCTCACAAACCCGACAGC
1 TCCTTTCTCCCTCACAAACCCGACAGC
10924327 ACCAGCTCTT
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
70 70 0.89
71 9 0.11
ACGTcount: A:0.28, C:0.39, G:0.06, T:0.28
Consensus pattern (71 bp):
TCCTTTCTCCCTCACAAACCCGACAGCCAAAACCCTTCATTTCTCTCTCTAAAACCAGCAGCAAC
AACTCC
Found at i:10925217 original size:19 final size:18
Alignment explanation
Indices: 10925195--10925237 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
10925185 TTAATATTTT
*
10925195 AATATTATTTTATTTATAA
1 AATATTATTTTATCT-TAA
*
10925214 AATAATATTTTATCTTAA
1 AATATTATTTTATCTTAA
10925232 AATATT
1 AATATT
10925238 CTTCTCACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTTTATCTTAA
Found at i:10930779 original size:17 final size:17
Alignment explanation
Indices: 10930757--10930791 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10930747 AATAAAATAT
10930757 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
*
10930774 GCACACACTTAGGGGGA
1 GCACACACTAAGGGGGA
10930791 G
1 G
10930792 GAAAACCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.37, T:0.09
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:10931290 original size:73 final size:72
Alignment explanation
Indices: 10931145--10931324 Score: 197
Period size: 73 Copynumber: 2.5 Consensus size: 72
10931135 CAGAGAAGAG
* * * * * *
10931145 TTAATTGACCAAGAAGTAAGTTAGTCGACTAAGAGCTTACTGCTAGAAATCTGGACTTCAAGAAA
1 TTAATCGACTAAGAAGCAAGTTAGTCGACTAAGAGCTCACTGCCAAAAATCTGGACTT-AAGAAA
10931210 AAAACAAC
65 AAAACAAC
*
10931218 TTAATCGACTAAGAAGGAAGTTAGTCGACTAAGAGCTCACTGCCAAAAAT-TGGGA-TT-AGAAA
1 TTAATCGACTAAGAAGCAAGTTAGTCGACTAAGAGCTCACTGCCAAAAATCT-GGACTTAAGAAA
10931280 ATAGAGACAAC
65 A-A-A-ACAAC
* *
10931291 TTAGTCGACTAAG-AGCATAATTAGTCGACTAAGA
1 TTAATCGACTAAGAAGCA-AGTTAGTCGACTAAGA
10931325 TCATTTTGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 6 0.06
71 1 0.01
72 7 0.08
73 79 0.85
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.23
Consensus pattern (72 bp):
TTAATCGACTAAGAAGCAAGTTAGTCGACTAAGAGCTCACTGCCAAAAATCTGGACTTAAGAAAA
AAACAAC
Found at i:10935948 original size:43 final size:43
Alignment explanation
Indices: 10935889--10935975 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
10935879 TTGTGTGATA
*
10935889 ATGATGACCTAGCTATGTGTGGTGTGAGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGCTG
*
10935932 ATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGCTG
10935975 A
1 A
10935976 GTGTGGTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (43 bp):
ATGATGACCTAGCTATGTGCGGTGTGAGAGTGCACATGAGCTG
Found at i:10936303 original size:21 final size:21
Alignment explanation
Indices: 10936274--10936326 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10936264 CTGCAGTGAG
* *
10936274 GAATTTCGCTGCAATGAAAAT
1 GAATCTCGCTGCAACGAAAAT
*
10936295 GAATCTCGCTGCAGCGAAAAT
1 GAATCTCGCTGCAACGAAAAT
*
10936316 GAATCTTGCTG
1 GAATCTCGCTG
10936327 TAGAGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (21 bp):
GAATCTCGCTGCAACGAAAAT
Found at i:10942144 original size:20 final size:20
Alignment explanation
Indices: 10942119--10942158 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10942109 GCATAAATAT
*
10942119 CTCATTCCTCCAGCAGCTTC
1 CTCATTCCTCCAACAGCTTC
**
10942139 CTCATTTTTCCAACAGCTTC
1 CTCATTCCTCCAACAGCTTC
10942159 TTCTTCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.40, G:0.07, T:0.35
Consensus pattern (20 bp):
CTCATTCCTCCAACAGCTTC
Found at i:10952646 original size:26 final size:23
Alignment explanation
Indices: 10952584--10952644 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
10952574 GTATACGTAT
*
10952584 TCCCATCATCATCATGCACACCA
1 TCCCATCATCATCATACACACCA
10952607 TCCCATCATCATCATACACACCA
1 TCCCATCATCATCATACACACCA
*
10952630 TCACATCATCATCAT
1 TCCCATCATCATCAT
10952645 CACTAGCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.41, G:0.02, T:0.25
Consensus pattern (23 bp):
TCCCATCATCATCATACACACCA
Found at i:10952728 original size:43 final size:43
Alignment explanation
Indices: 10952651--10952772 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
10952641 TCATCACTAG
* * * * * **
10952651 CTTATGCGCACTCCCTACTAGTAAATGGCTGGGTCATCAC-CGG
1 CTTATGCGCACTCCCTACTCGCACATAGCCGGGTCATC-CTCAA
* *
10952694 GTTATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCAA
1 CTTATGCGCACTCCCTACTCGCACATAGCCGGGTCATCCTCAA
* * *
10952737 CTTATGTGCACTCCCCACTCGCACATAGCCGAGTCA
1 CTTATGCGCACTCCCTACTCGCACATAGCCGGGTCA
10952773 ATATAATTAC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTATGCGCACTCCCTACTCGCACATAGCCGGGTCATCCTCAA
Found at i:10955075 original size:43 final size:43
Alignment explanation
Indices: 10955016--10955141 Score: 182
Period size: 43 Copynumber: 2.9 Consensus size: 43
10955006 TTATGTGATA
10955016 ATGATGACCCAGCTATGTGCAGTGTGAGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAGTGTGAGAGTGCACATGAGCTG
* *
10955059 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCAGTGTGAGAGTGCACATGAGCTG
* * * *
10955102 ATGATGCCCCGGCTATGTGCA-AGTAAGGAGTGCACATGAG
1 ATGATGACCCAGCTATGTGCAGTGTGA-GAGTGCACATGAG
10955142 TTGAGTGTGG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 2 0.03
43 72 0.97
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCAGTGTGAGAGTGCACATGAGCTG
Found at i:10967829 original size:11 final size:11
Alignment explanation
Indices: 10967815--10967847 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10967805 TTATGTAATT
10967815 AAATAATATTA
1 AAATAATATTA
*
10967826 AAATAATAATA
1 AAATAATATTA
10967837 AAATAATATTA
1 AAATAATATTA
10967848 TTTTATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATATTA
Found at i:10967832 original size:19 final size:21
Alignment explanation
Indices: 10967793--10967847 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
10967783 GTATTTTAAA
* **
10967793 ATAAAATAATATTTATGTAAT
1 ATAAAATAATATTAAAATAAT
10967814 -T-AAATAATATTAAAATAAT
1 ATAAAATAATATTAAAATAAT
10967833 AATAAAATAATATTA
1 -ATAAAATAATATTA
10967848 TTTTATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.54
20 1 0.04
21 1 0.04
22 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAAAATAATATTAAAATAAT
Found at i:10978957 original size:42 final size:42
Alignment explanation
Indices: 10978900--10979071 Score: 283
Period size: 42 Copynumber: 4.1 Consensus size: 42
10978890 TTATATGATA
*
10978900 ATGATGACCCAGCTATGTGTGTGTGTGG-GTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTG-GGAGTGCACATGAGCTG
**
10978942 ATGATGACTTAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
10978984 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
*
10979026 ATGATGACCCAGCTATGTGCGAGTGGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTGT-GGGAGTGCACATGAGCTG
10979069 ATG
1 ATG
10979072 GTGGTGGGAT
Statistics
Matches: 122, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
41 2 0.02
42 99 0.81
43 21 0.17
ACGTcount: A:0.22, C:0.17, G:0.36, T:0.26
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
Found at i:10986719 original size:35 final size:35
Alignment explanation
Indices: 10986630--10986710 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
10986620 GGAGTGCGTG
*
10986630 TGATGATATTGAAGTGTGCGAGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACA
* *
10986665 TAATGATATAGAAATGTGCGAGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACA
10986700 TGATGATATTG
1 TGATGATATTG
10986711 CCTTGTGCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.32, C:0.07, G:0.33, T:0.27
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGAGTAGGGAGTGCACA
Found at i:10989459 original size:77 final size:77
Alignment explanation
Indices: 10989332--10989496 Score: 285
Period size: 77 Copynumber: 2.1 Consensus size: 77
10989322 GGAATTTCAC
* *
10989332 AAATTAAAATACTATCTTTAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
*
10989397 ATGAATCACTCA
66 ATGAATCACCCA
*
10989409 AAATTAAAATTCTATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
*
10989474 TTGAATCACCCA
66 ATGAATCACCCA
10989486 AAATTAAAATA
1 AAATTAAAATA
10989497 GATGGTATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (77 bp):
AAATTAAAATACTATCCTTAATTTTAGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
ATGAATCACCCA
Found at i:10996943 original size:17 final size:16
Alignment explanation
Indices: 10996917--10996950 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10996907 TGGCTTAGAA
10996917 TTTTGTTAGTTAATTT
1 TTTTGTTAGTTAATTT
*
10996933 TTTTAGTTAGTTTATTT
1 TTTT-GTTAGTTAATTT
10996950 T
1 T
10996951 AAGATATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (16 bp):
TTTTGTTAGTTAATTT
Found at i:10997959 original size:68 final size:68
Alignment explanation
Indices: 10997876--10998011 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
10997866 AAACTTATGG
*
10997876 GATCTTAGTTTTCACTTGAATTGATGCATGAATTTAAGGATTAGCTGTATGTTACCTTAGGTTGG
1 GATCTTAGTTTTCACTTGAATTGATGCATGAATTTAAGGATTAGCTGTATGTCACCTTAGGTTGG
10997941 AAT
66 AAT
**
10997944 NGATC-TAGTTTTCACTTGAATTGATGTTTGAATTTAAGGATTAGCTGTATGTCACCTTAGGTTG
1 -GATCTTAGTTTTCACTTGAATTGATGCATGAATTTAAGGATTAGCTGTATGTCACCTTAGGTTG
10998008 GAAT
65 GAAT
10998012 TGGAGTTAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 60 0.94
69 4 0.06
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (68 bp):
GATCTTAGTTTTCACTTGAATTGATGCATGAATTTAAGGATTAGCTGTATGTCACCTTAGGTTGG
AAT
Found at i:11003004 original size:17 final size:17
Alignment explanation
Indices: 11002973--11003005 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11002963 CTCTTGATAA
11002973 AATAAAACTCATTGTTG
1 AATAAAACTCATTGTTG
11002990 AATAATAACTC-TTGTT
1 AATAA-AACTCATTGTT
11003006 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (17 bp):
AATAAAACTCATTGTTG
Found at i:11003175 original size:22 final size:23
Alignment explanation
Indices: 11003132--11003175 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
11003122 TAGCATAATC
** *
11003132 TTAATTTAAGACAACTCTTGTTT
1 TTAATTTAAGACAAAACATGTTT
11003155 TTAA-TTAAGACAAAACATGTT
1 TTAATTTAAGACAAAACATGTT
11003176 ATCTTGTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (23 bp):
TTAATTTAAGACAAAACATGTTT
Found at i:11003208 original size:28 final size:29
Alignment explanation
Indices: 11003157--11003315 Score: 205
Period size: 29 Copynumber: 5.5 Consensus size: 29
11003147 TCTTGTTTTT
*
11003157 AATTAAGACAAAACATGTTATCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
11003186 AATTGAGAC-AAACAAGTTTTCTTTTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
11003214 GATTAAGACAAAACATATTTTTCTTGCCTTA
1 AATTAAGACAAAACAT-GTTTTCTTGTC-TA
*
11003245 AATTAAGAC-AAGCATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
11003273 AATTAAGACAAAACATGTTTTCCTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
11003302 AATTAAGACAAAAC
1 AATTAAGACAAAAC
11003316 GTGTAAAAGC
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
28 34 0.31
29 53 0.48
30 13 0.12
31 10 0.09
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:11003264 original size:59 final size:57
Alignment explanation
Indices: 11003157--11003313 Score: 215
Period size: 59 Copynumber: 2.7 Consensus size: 57
11003147 TCTTGTTTTT
* * *
11003157 AATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACAAGTTTTCTTTTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACAAGTTTTCTTGTCTA
* * * * *
11003214 GATTAAGACAAAACATATTTTTCTTGCCTTAAATTAAGACAAGCATGTTTTCTTGTCTA
1 AATTAAGACAAAACAT-GTTTTCTTGTC-TAAATTAAGACAAACAAGTTTTCTTGTCTA
*
11003273 AATTAAGACAAAACATGTTTTCCTGTCTAAATTAAGACAAA
1 AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAA
11003314 ACGTGTAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
57 28 0.33
58 16 0.19
59 41 0.48
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.36
Consensus pattern (57 bp):
AATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACAAGTTTTCTTGTCTA
Found at i:11006434 original size:25 final size:25
Alignment explanation
Indices: 11006385--11006434 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11006375 ATGTGGTCGC
* **
11006385 AACCATGTATATCAACTTGTAGCCT
1 AACCATGTATAACAACCCGTAGCCT
*
11006410 AACCATGTATAACAACCCGTGGCCT
1 AACCATGTATAACAACCCGTAGCCT
11006435 TGCCACGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (25 bp):
AACCATGTATAACAACCCGTAGCCT
Found at i:11010836 original size:19 final size:19
Alignment explanation
Indices: 11010796--11010845 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
11010786 AACCTGCCAA
*
11010796 AAAAGA-AAAAAAAAAGAG
1 AAAAGAGAAGAAAAAAGAG
11010814 -AAAGAGAAGAAAAAAGAG
1 AAAAGAGAAGAAAAAAGAG
11010832 AAAAG-GAAAGAAAA
1 AAAAGAG-AAGAAAA
11010846 GGAAGAGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAGAAAAAAGAG
Found at i:11010895 original size:18 final size:19
Alignment explanation
Indices: 11010872--11010929 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 19
11010862 CTCGAGGGAG
11010872 AGAAAGGAGAGAAAAA-AA
1 AGAAAGGAGAGAAAAAGAA
11010890 AGAAAGAGAAAGAGAAAAAGAA
1 AGAAAG-G--AGAGAAAAAGAA
11010912 AGAAA--AGAGAAAAGAGAA
1 AGAAAGGAGAGAAAA-AGAA
11010930 GTAAGAGAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 8 0.23
18 10 0.29
19 1 0.03
21 9 0.26
22 7 0.20
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AGAAAGGAGAGAAAAAGAA
Found at i:11010896 original size:84 final size:84
Alignment explanation
Indices: 11010801--11010982 Score: 262
Period size: 84 Copynumber: 2.2 Consensus size: 84
11010791 GCCAAAAAAG
* *
11010801 AAAAAAA-AAAGAGAAAGAGAAGAAA-AAAGAGAAA-AGGAAAGAAAAGGAAGAGAGTGGGCTGC
1 AAAAAAAGAAAGAGAAAGAGAA-AAAGAAAGA-AAAGAGAAAAGAAAAGGAAGAGAGTGGGCAGC
*
11010863 TCGAGGGAGAGAAAGGAGAGA
64 CCGAGGGAGAGAAAGGAGAGA
* *
11010884 AAAAAAAGAAAGAGAAAGAGAAAAAGAAAGAAAAGAGAAAAGAGAAGTAAGAGAGTGGGCAGCCC
1 AAAAAAAGAAAGAGAAAGAGAAAAAGAAAGAAAAGAGAAAAGAAAAGGAAGAGAGTGGGCAGCCC
11010949 GAGGGAGAGAAAGGAGAGA
66 GAGGGAGAGAAAGGAGAGA
**
11010968 GGAAAAAGAAAGAGA
1 AAAAAAAGAAAGAGA
11010983 GAGGGAGCAC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
83 13 0.15
84 76 0.85
ACGTcount: A:0.59, C:0.04, G:0.35, T:0.03
Consensus pattern (84 bp):
AAAAAAAGAAAGAGAAAGAGAAAAAGAAAGAAAAGAGAAAAGAAAAGGAAGAGAGTGGGCAGCCC
GAGGGAGAGAAAGGAGAGA
Found at i:11010901 original size:6 final size:6
Alignment explanation
Indices: 11010879--11010929 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
11010869 GAGAGAAAGG
*
11010879 AGAGAA A-A-AA A-AGAA AGAGAA AGAGAA AAAGAA AGA-AA AGAGAAA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAG-AA
11010924 AGAGAA
1 AGAGAA
11010930 GTAAGAGAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.10
5 9 0.23
6 20 0.51
7 6 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:11010918 original size:23 final size:22
Alignment explanation
Indices: 11010870--11010929 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 22
11010860 TGCTCGAGGG
11010870 AGAGAAAGGAGAGAAAAAAAAGAA
1 AGAGAAA--AGAGAAAAAAAAGAA
11010894 AGAG-AAAGAGAAAAAGAAAGAAA
1 AGAGAAAAGAGAAAAA-AAAG-AA
11010917 AGAGAAAAGAGAA
1 AGAGAAAAGAGAA
11010930 GTAAGAGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.27
22 4 0.12
23 8 0.24
24 12 0.36
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AGAGAAAAGAGAAAAAAAAGAA
Found at i:11011162 original size:7 final size:7
Alignment explanation
Indices: 11011152--11011193 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
11011142 AAGAAGAGGG
11011152 AAGAAAA
1 AAGAAAA
11011159 AAG-AAA
1 AAGAAAA
11011165 AAGAAGAAA
1 AAG-A-AAA
*
11011174 AAGAAGA
1 AAGAAAA
11011181 AAGAAAA
1 AAGAAAA
11011188 AAGAAA
1 AAGAAA
11011194 CGCCGACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 1 0.03
9 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:11011173 original size:9 final size:9
Alignment explanation
Indices: 11011151--11011182 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
11011141 GAAGAAGAGG
11011151 GAAG-AAAA
1 GAAGAAAAA
11011159 -AAGAAAAA
1 GAAGAAAAA
11011167 GAAGAAAAA
1 GAAGAAAAA
11011176 GAAGAAA
1 GAAGAAA
11011183 GAAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.14
8 4 0.18
9 15 0.68
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:11011192 original size:29 final size:29
Alignment explanation
Indices: 11011137--11011193 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11011127 ACGACAGAGG
* * *
11011137 AGAAGAAGAAGAGGGAAGAAAAAAGAAAA
1 AGAAGAAAAAGAAGAAAGAAAAAAGAAAA
11011166 AGAAGAAAAAGAAGAAAGAAAAAAGAAA
1 AGAAGAAAAAGAAGAAAGAAAAAAGAAA
11011194 CGCCGACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (29 bp):
AGAAGAAAAAGAAGAAAGAAAAAAGAAAA
Found at i:11011903 original size:60 final size:60
Alignment explanation
Indices: 11011809--11012110 Score: 405
Period size: 60 Copynumber: 5.0 Consensus size: 60
11011799 TATGTGATTT
* *
11011809 TAAAAGGGGGACTTGAAGCCTCGATTTATATTTGGTGGCGCGGGTAGTTCCCACGAGTAGG
1 TAAAA-GGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGG
*
11011870 TAAAAGGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCATGAGTAGG
1 TAAAAGGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGG
* *
11011930 TAAAGGGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTATG
1 TAAAAGGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGG
* **
11011990 TAAAAAGTGGGACTTGAAGCCCCGA-TT-CATTTGGTGGCGTGGCCAGTTCCCACGAGTAGG
1 T-AAAAG-GGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGG
* * * * * *
11012050 TAAAAAGAGGGACCTAAAGCCCCGA-TT-CATCTGGTGGCATGGGCAGTTCCCACGAGTAGG
1 T-AAAAG-GGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGG
11012110 T
1 T
11012111 GATGATGTCT
Statistics
Matches: 222, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
60 194 0.87
61 11 0.05
62 17 0.08
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (60 bp):
TAAAAGGGGACTTGAAGCCCCGATTTATATTTGGTGGCGTGGGTAGTTCCCACGAGTAGG
Found at i:11013051 original size:2 final size:2
Alignment explanation
Indices: 11013044--11013078 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11013034 ATTCATCCTN
11013044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11013079 CAATATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11013684 original size:22 final size:22
Alignment explanation
Indices: 11013659--11013702 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11013649 ACTTCCGTCA
11013659 AACACT-TTCTAAGTTTACATGT
1 AACACTATTCTAA-TTTACATGT
* *
11013681 AACATTATTCTCATTTACATGT
1 AACACTATTCTAATTTACATGT
11013703 TGCCACCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (22 bp):
AACACTATTCTAATTTACATGT
Found at i:11016196 original size:43 final size:43
Alignment explanation
Indices: 11016115--11016251 Score: 186
Period size: 43 Copynumber: 3.2 Consensus size: 43
11016105 TTGTGTGACA
** *
11016115 ATGATGACCCAACTATGT-AAGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGAGAGTGCACATGAGCTG
*
11016157 ATGATGACCCAACTATGTGCGGTGTGAGAATGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGAGAGTGCACATGAGCTG
* * * * *
11016200 ATGATGACCTAGCTATGTGCGGTGTGTGAGTACACATGAGTTG
1 ATGATGACCCAACTATGTGCGGTGTGAGAGTGCACATGAGCTG
11016243 ATGATGACC
1 ATGATGACC
11016252 TCGCTATGTA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 18 0.21
43 66 0.79
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (43 bp):
ATGATGACCCAACTATGTGCGGTGTGAGAGTGCACATGAGCTG
Found at i:11028001 original size:19 final size:19
Alignment explanation
Indices: 11027961--11028002 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11027951 AGACCTAAGG
* *
11027961 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
11027980 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
11027999 AATA
1 AATA
11028003 TTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:11029150 original size:43 final size:43
Alignment explanation
Indices: 11029067--11029199 Score: 202
Period size: 43 Copynumber: 3.2 Consensus size: 43
11029057 TTTTGTGTGA
11029067 TAATGATGACCCAGCTATGTGC-GTGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCTGTGTGGGAGTGCACATGAGC
11029109 TAATGATGACCCAGCTATGTGCTGTGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCTGTGTGGGAGTGCACATGAGC
* * *
11029152 TGATGATGACCCGGCTATGTG-TGAGTAGGGAGTGCACATGA-C
1 TAATGATGACCCAGCTATGTGCTGTGT-GGGAGTGCACATGAGC
11029194 T-ATGAT
1 TAATGAT
11029200 ATTGCATTGT
Statistics
Matches: 86, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
41 5 0.06
42 28 0.33
43 53 0.62
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (43 bp):
TAATGATGACCCAGCTATGTGCTGTGTGGGAGTGCACATGAGC
Found at i:11029224 original size:81 final size:84
Alignment explanation
Indices: 11029069--11029235 Score: 211
Period size: 81 Copynumber: 2.0 Consensus size: 84
11029059 TTGTGTGATA
*
11029069 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTAATGATGACCCAGCTATGTGCTGT
1 ATGATGACCCAGCTATGTGCGAGTGGGAGTGCACATGAGCTAATGATGACCCA-CTATGTGCTGT
11029134 GTGGGAGTGCACATGAGCTG
65 GTGGGAGTGCACATGAGCTG
* * **
11029154 ATGATGACCCGGCTATGTGTGAGTAGGGAGTGCACATGA-CT-ATGAT-ATTGCA-T-TGTGC-G
1 ATGATGACCCAGCTATGTGCGAGT-GGGAGTGCACATGAGCTAATGATGA-CCCACTATGTGCTG
11029213 TGTAGGGAGTGCACATGAGCTG
64 TGT-GGGAGTGCACATGAGCTG
11029235 A
1 A
11029236 GTGTGGCAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
80 4 0.05
81 24 0.32
82 1 0.01
83 1 0.01
84 7 0.09
85 23 0.31
86 14 0.19
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (84 bp):
ATGATGACCCAGCTATGTGCGAGTGGGAGTGCACATGAGCTAATGATGACCCACTATGTGCTGTG
TGGGAGTGCACATGAGCTG
Found at i:11037777 original size:35 final size:35
Alignment explanation
Indices: 11037733--11037806 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
11037723 GAGAATGCGT
11037733 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
* * *
11037768 ATGATGATATTGAAATGTGTGTGTAGGGAGTGTAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
11037803 ATGA
1 ATGA
11037807 ACTGAGTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.05, G:0.34, T:0.30
Consensus pattern (35 bp):
ATGATGATATTGAAATGTGCGAGTAGGGAGTGCAC
Found at i:11040490 original size:34 final size:35
Alignment explanation
Indices: 11040452--11040519 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
11040442 AGGTGTCGTT
* *
11040452 GGTTTAAGG-GAGAAGTT-TTTGGGTGGTTGCAACC
1 GGTTTAAGGAGAGAA-TTCCTTGGATGGTTGCAACC
*
11040486 GGTTTGAGGAGAGAATTCCTTGGATGGTTGCAAC
1 GGTTTAAGGAGAGAATTCCTTGGATGGTTGCAAC
11040520 TAGTTTTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.22, C:0.10, G:0.37, T:0.31
Consensus pattern (35 bp):
GGTTTAAGGAGAGAATTCCTTGGATGGTTGCAACC
Found at i:11040630 original size:36 final size:34
Alignment explanation
Indices: 11040590--11040656 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
11040580 GAAAGGAGTT
* *
11040590 GATTTTTGAGAGAGGAACGAGAGGCCTTGTGCTATC
1 GATTTTT--GAGAGGAAAGAGAGACCTTGTGCTATC
*
11040626 GATTTTTTAGAGGAAAGAGAGACCTTGTGCT
1 GATTTTTGAGAGGAAAGAGAGACCTTGTGCT
11040657 GCTGGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 21 0.75
36 7 0.25
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (34 bp):
GATTTTTGAGAGGAAAGAGAGACCTTGTGCTATC
Found at i:11045628 original size:15 final size:16
Alignment explanation
Indices: 11045598--11045633 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11045588 GTTTTGAAAG
*
11045598 AAGTTTTTGATTTTTA
1 AAGTTTTTGATATTTA
11045614 AAGTTTTTGA-ATTTA
1 AAGTTTTTGATATTTA
11045629 AAGTT
1 AAGTT
11045634 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (16 bp):
AAGTTTTTGATATTTA
Found at i:11056773 original size:40 final size:41
Alignment explanation
Indices: 11056726--11056877 Score: 198
Period size: 43 Copynumber: 3.6 Consensus size: 41
11056716 TCATTCATCA
* * *
11056726 TCATGTGCACTCCCTACTCACACAT-TTCAACATCATCAGC
1 TCATGTGCACTCCCTACTCGCACATATTCATCATCATCGGC
***
11056766 TCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCGGC
1 TCATGTGCACTCCCTACTCGCACATA--TTCATCATCATCGGC
*
11056809 TCATGTGCACTCCCTACTCGCACATAGTCAGGTCATCATCGGC
1 TCATGTGCACTCCCTACTCGCACATATTCA--TCATCATCGGC
11056852 TCATGTGCACTCCCTACTCGCACATA
1 TCATGTGCACTCCCTACTCGCACATA
11056878 GCCGGGTCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
40 24 0.25
43 73 0.75
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.26
Consensus pattern (41 bp):
TCATGTGCACTCCCTACTCGCACATATTCATCATCATCGGC
Found at i:11056817 original size:43 final size:43
Alignment explanation
Indices: 11056756--11056891 Score: 229
Period size: 43 Copynumber: 3.2 Consensus size: 43
11056746 CACATTTCAA
*
11056756 CATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGT
1 CATCATCGGCTCATGTGCACTCCCTACTCGCACATAGCTGGGT
*
11056799 CATCATCGGCTCATGTGCACTCCCTACTCGCACATAG-TCAGGT
1 CATCATCGGCTCATGTGCACTCCCTACTCGCACATAGCT-GGGT
*
11056842 CATCATCGGCTCATGTGCACTCCCTACTCGCACATAGCCGGGT
1 CATCATCGGCTCATGTGCACTCCCTACTCGCACATAGCTGGGT
11056885 CATCATC
1 CATCATC
11056892 ATCACATAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 1 0.01
43 86 0.99
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (43 bp):
CATCATCGGCTCATGTGCACTCCCTACTCGCACATAGCTGGGT
Found at i:11056872 original size:86 final size:83
Alignment explanation
Indices: 11056726--11056891 Score: 260
Period size: 86 Copynumber: 2.0 Consensus size: 83
11056716 TCATTCATCA
*
11056726 TCATGTGCACTCCCTACTCACACATTTCAACATCATCAGCTCATGTGCACTCCCTACTCGCACAT
1 TCATGTGCACTCCCTACTCACACATGTCAACATCATCAGCTCATGTGCACTCCCTACTCGCACAT
*
11056791 AGCTGGGTCATCATCGGC
66 AGCCGGGTCATCATCGGC
* * *
11056809 TCATGTGCACTCCCTACTCGCACATAGTCAGGTCATCATCGGCTCATGTGCACTCCCTACTCGCA
1 TCATGTGCACTCCCTACTCACACAT-GTCA--ACATCATCAGCTCATGTGCACTCCCTACTCGCA
11056874 CATAGCCGGGTCATCATC
63 CATAGCCGGGTCATCATC
11056892 ATCACATAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 24 0.32
84 3 0.04
86 48 0.64
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (83 bp):
TCATGTGCACTCCCTACTCACACATGTCAACATCATCAGCTCATGTGCACTCCCTACTCGCACAT
AGCCGGGTCATCATCGGC
Found at i:11058018 original size:23 final size:24
Alignment explanation
Indices: 11057992--11058040 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
11057982 TCACTATTTC
*
11057992 TATTTTCTTCATT-ATTTTAT-CCT
1 TATTTTCATCATTCA-TTTATGCCT
11058015 TATTTTCATCATTCATTTATGCCT
1 TATTTTCATCATTCATTTATGCCT
11058039 TA
1 TA
11058041 GGCTTACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.20, C:0.18, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTTTCATCATTCATTTATGCCT
Found at i:11060582 original size:22 final size:22
Alignment explanation
Indices: 11060541--11060581 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11060531 TACCTTTTGT
*
11060541 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
11060563 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
11060582 TGTACCTAGG
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:11063893 original size:39 final size:39
Alignment explanation
Indices: 11063830--11063914 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
11063820 GAATATTGTT
* *
11063830 GCAGCGAAATTATGACCCAAAAACAGAATGTTTCTCGCC
1 GCAGCGAAATTATAACCCAAAAACAGAAAGTTTCTCGCC
* * * *
11063869 GCAGCGAAATTGTAACCTAGAAACAGAAAGTTTCTCGCT
1 GCAGCGAAATTATAACCCAAAAACAGAAAGTTTCTCGCC
11063908 GCAGCGA
1 GCAGCGA
11063915 GAAGCTACTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (39 bp):
GCAGCGAAATTATAACCCAAAAACAGAAAGTTTCTCGCC
Found at i:11067173 original size:18 final size:19
Alignment explanation
Indices: 11067137--11067173 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11067127 TTCGGTTTAA
11067137 AAGTTTTTGATTTTGAAAG
1 AAGTTTTTGATTTTGAAAG
11067156 AAGTTTTTGATTTT-AAAG
1 AAGTTTTTGATTTTGAAAG
11067174 TTCTTGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (19 bp):
AAGTTTTTGATTTTGAAAG
Found at i:11072899 original size:26 final size:26
Alignment explanation
Indices: 11072843--11072901 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
11072833 GGCCGGCCAT
* *
11072843 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
11072869 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
11072895 AAGGAAA
1 AAGGAAA
11072902 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Done.