Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 112 of 318
Found at i:34147644 original size:122 final size:122
Alignment explanation
Indices: 34147424--34147644 Score: 318
Period size: 122 Copynumber: 1.8 Consensus size: 122
34147414 GAATTATGTG
* * * * * * *
34147424 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
34147489 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
34147546 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
34147611 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTAT
66 GCTAAGTCCCGAAGACGA-TTATGCTAGAAATTAT
34147645 ATCCGGGTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 85 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:34147768 original size:40 final size:40
Alignment explanation
Indices: 34147641--34147770 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
34147631 ATGCTGGAAA
* *
34147641 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
34147681 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
34147721 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
34147761 TTATATCCGG
1 TTATATCCGG
34147771 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:34155616 original size:122 final size:122
Alignment explanation
Indices: 34155396--34155616 Score: 318
Period size: 122 Copynumber: 1.8 Consensus size: 122
34155386 GAATTATGTG
* * * * * * *
34155396 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
34155461 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
34155518 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
34155583 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTAT
66 GCTAAGTCCCGAAGACGA-TTATGCTAGAAATTAT
34155617 ATCCGGGTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 85 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:34155740 original size:40 final size:40
Alignment explanation
Indices: 34155613--34155742 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
34155603 ATGCTGGAAA
* *
34155613 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
34155653 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
34155693 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
34155733 TTATATCCGG
1 TTATATCCGG
34155743 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:34165751 original size:7 final size:7
Alignment explanation
Indices: 34165739--34165763 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34165729 AGTGCGCAAC
34165739 ATGTGAT
1 ATGTGAT
34165746 ATGTGAT
1 ATGTGAT
34165753 ATGTGAT
1 ATGTGAT
34165760 ATGT
1 ATGT
34165764 AGCACCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (7 bp):
ATGTGAT
Found at i:34166371 original size:33 final size:33
Alignment explanation
Indices: 34166313--34166407 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
34166303 GGCCTTAGCC
* *
34166313 CAGATCAGTAATA-ATCGGGCCTGAGCCCATTA
1 CAGATCAGTAATAGTTTGGGCCTGAGCCCATTA
34166345 CAGATCAGTAATAGTTTGGGCCTGAGCCCATTA
1 CAGATCAGTAATAGTTTGGGCCTGAGCCCATTA
* * * *
34166378 C-GAAACAGTAACAGTGTGGGCCTTAGCCCA
1 CAG-ATCAGTAATAGTTTGGGCCTGAGCCCA
34166408 ATGCAGTAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 14 0.25
33 41 0.75
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (33 bp):
CAGATCAGTAATAGTTTGGGCCTGAGCCCATTA
Found at i:34166582 original size:26 final size:26
Alignment explanation
Indices: 34166553--34166602 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
34166543 GTAATAACAT
* * *
34166553 CGCAACAAAGTTGCCAGTATCAGTAA
1 CGCAACAAAGCTACCAGTAACAGTAA
*
34166579 CGCAGCAAAGCTACCAGTAACAGT
1 CGCAACAAAGCTACCAGTAACAGT
34166603 GTATGTGGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (26 bp):
CGCAACAAAGCTACCAGTAACAGTAA
Found at i:34166621 original size:27 final size:27
Alignment explanation
Indices: 34166583--34166656 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
34166573 CAGTAACGCA
* *
34166583 GCAAAGCTACCAGTAACAGTGTATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
*
34166610 GCAAAGCCACCAGTAATAGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
* *
34166637 GTAAAGCCACTAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
34166657 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTATATGTG
Found at i:34174392 original size:43 final size:43
Alignment explanation
Indices: 34174343--34174519 Score: 282
Period size: 43 Copynumber: 4.1 Consensus size: 43
34174333 ATGAAACTTA
*
34174343 GTGATGTGTATTCGGACCTTCATGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCG
* *
34174386 ATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCG
*
34174429 GTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCATGCCG
1 GTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCG
* * **
34174472 GTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCG
1 GTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCG
34174515 GTGAT
1 GTGAT
34174520 TCGAGCAAGG
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 125 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.31
Consensus pattern (43 bp):
GTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCG
Found at i:34174737 original size:29 final size:29
Alignment explanation
Indices: 34174705--34174859 Score: 104
Period size: 29 Copynumber: 5.4 Consensus size: 29
34174695 CTTTAACCGA
* *
34174705 GCACTATGTGTGTGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * ** *
34174734 GCACTGTGTGTGC-AAATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CGGTAACTGAG
* *
34174763 TCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * * *
34174792 GCACTGTGTGTGCGAGTTC-TTCAACCGA-
1 GCACTATGTGTGCGAGATCGGT-AACTGAG
* *
34174820 GCACTATGTGTGCGAGATCGGTTAGTG-G
1 GCACTATGTGTGCGAGATCGGTAACTGAG
*
34174848 GCACTAAGTGTG
1 GCACTATGTGTG
34174860 TGAAATGAGA
Statistics
Matches: 92, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
28 39 0.42
29 45 0.49
30 8 0.09
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAACTGAG
Found at i:34174741 original size:58 final size:58
Alignment explanation
Indices: 34174673--34174841 Score: 277
Period size: 58 Copynumber: 2.9 Consensus size: 58
34174663 CGAATGATTA
* *
34174673 GAGGCACTGTGTGCGCAAATTCCTTTAACCGAGCACTATGTGTGTGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
*
34174731 GAGGCACTGTGTGTGCAAATTCCTTTAACCGATCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * *
34174789 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
34174842 TAGTGGGCAC
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 30 0.29
58 74 0.71
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:34174851 original size:28 final size:28
Alignment explanation
Indices: 34174764--34174859 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
34174754 TTTAACCGAT
* *
34174764 CACTATGTGTGCGAGATCGGTAATTGAGG
1 CACTATGTGTGCGAGATCGGTTACTG-GG
* * * *
34174793 CACTGTGTGTGCGAGTTC--TTCAACCGAG
1 CACTATGTGTGCGAGATCGGTT--ACTGGG
*
34174821 CACTATGTGTGCGAGATCGGTTAGTGGG
1 CACTATGTGTGCGAGATCGGTTACTGGG
*
34174849 CACTAAGTGTG
1 CACTATGTGTG
34174860 TGAAATGAGA
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
27 1 0.02
28 30 0.59
29 18 0.35
30 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (28 bp):
CACTATGTGTGCGAGATCGGTTACTGGG
Found at i:34187052 original size:40 final size:40
Alignment explanation
Indices: 34187007--34187233 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
34186997 CCTGATTGCA
*
34187007 TGCCCCTCTTTGTACTTCGATACCCCTGATTGCACATACG
1 TGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACG
* * *
34187047 CGCCCCTGTTTGTACTTC-AGTACCCTTGATTGCACATGCG
1 TGCCCCTGTTTGTACTTCGA-TACCCCTGATTGCACATACG
* * *
34187087 TGCCCCTGTTTGTACTTCGGTGCCCTTGATTGCACATACG
1 TGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACG
* * *
34187127 TGCCCTTGTTTGTACTTCGATACCCCTGATTGTACATACA
1 TGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACG
* * * * * * * * *
34187167 TGCCCTTATTTTTACTTCGGTACTCCTGTTTGGAAATATG
1 TGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACG
* * *
34187207 TACCCCTGTTTGTCCTTTGATACCCCT
1 TGCCCCTGTTTGTACTTCGATACCCCT
34187234 TGGGTACACG
Statistics
Matches: 154, Mismatches: 31, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 153 0.99
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (40 bp):
TGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACG
Found at i:34187111 original size:20 final size:20
Alignment explanation
Indices: 34187016--34187161 Score: 73
Period size: 20 Copynumber: 7.3 Consensus size: 20
34187006 ATGCCCCTCT
* *
34187016 TTGTACTTCGATACCCCTGA
1 TTGTACTTCGGTGCCCCTGA
* * * *
34187036 TTGCACATAC-GCGCCCCTGT
1 TTGTAC-TTCGGTGCCCCTGA
* * *
34187056 TTGTACTTCAGTACCCTTGA
1 TTGTACTTCGGTGCCCCTGA
* * *
34187076 TTGCACAT-GCGTGCCCCTGT
1 TTGTACTTCG-GTGCCCCTGA
*
34187096 TTGTACTTCGGTGCCCTTGA
1 TTGTACTTCGGTGCCCCTGA
* * * *
34187116 TTGCACATAC-GTGCCCTTGT
1 TTGTAC-TTCGGTGCCCCTGA
* *
34187136 TTGTACTTCGATACCCCTGA
1 TTGTACTTCGGTGCCCCTGA
34187156 TTGTAC
1 TTGTAC
34187162 ATACATGCCC
Statistics
Matches: 89, Mismatches: 31, Indels: 12
0.67 0.23 0.09
Matches are distributed among these distances:
19 4 0.04
20 80 0.90
21 5 0.06
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTACTTCGGTGCCCCTGA
Found at i:34190005 original size:35 final size:35
Alignment explanation
Indices: 34189959--34190028 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
34189949 AGTAATTTTG
34189959 TGTGATAGGTAAATATGTATCTGCTTCAGTGGTTA
1 TGTGATAGGTAAATATGTATCTGCTTCAGTGGTTA
34189994 TGTGATAGGTAAATATGTATCTGCTTCAGTGGTTA
1 TGTGATAGGTAAATATGTATCTGCTTCAGTGGTTA
34190029 AGTGCTCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (35 bp):
TGTGATAGGTAAATATGTATCTGCTTCAGTGGTTA
Found at i:34193527 original size:42 final size:42
Alignment explanation
Indices: 34193480--34193564 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
34193470 GCGAAGTTTG
34193480 AAAACTCACCACCAACAACAGAGATCCCCTAACGATCAAATC
1 AAAACTCACCACCAACAACAGAGATCCCCTAACGATCAAATC
*
34193522 AAAACTTACCACCAACAACAGAGATCCCCTAACGATCAAATC
1 AAAACTCACCACCAACAACAGAGATCCCCTAACGATCAAATC
34193564 A
1 A
34193565 CTGAAATGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.46, C:0.34, G:0.07, T:0.13
Consensus pattern (42 bp):
AAAACTCACCACCAACAACAGAGATCCCCTAACGATCAAATC
Found at i:34196380 original size:20 final size:20
Alignment explanation
Indices: 34196340--34196380 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34196330 CACGCTCATC
* * *
34196340 TGCTTTGGGACACGCCTGTG
1 TGCTTTAGGACACACCCGTG
34196360 TGCTTTAGGACACACCCGTG
1 TGCTTTAGGACACACCCGTG
34196380 T
1 T
34196381 CCCTTACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (20 bp):
TGCTTTAGGACACACCCGTG
Found at i:34202172 original size:48 final size:48
Alignment explanation
Indices: 34202033--34202159 Score: 209
Period size: 48 Copynumber: 2.6 Consensus size: 48
34202023 ATGATGCCTC
* **
34202033 ATGCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
34202081 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
34202129 ATGCCGATGCCATGTCCCAAACATGGTCTTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTA
34202160 TACGGGATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
Found at i:34210505 original size:53 final size:54
Alignment explanation
Indices: 34210327--34210533 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 54
34210317 ATTAGGGTTT
* * * * *
34210327 AAGGATACTAAGTAAGACCATGCCAA-AGCATGCCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCAATGGTAAGTTCTATAAGGC
* * * * * * * * *
34210381 AAGGAAATCATGTAAGACCATGGCAAGACATGACATTGATAAACTACTATAGGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * *
34210436 AAAGATCCCATATAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *
34210489 AAGGATACCACGTAAGACCACGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
34210534 TAAAAGGTAC
Statistics
Matches: 118, Mismatches: 33, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 43 0.36
54 34 0.29
55 41 0.35
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:34212144 original size:15 final size:15
Alignment explanation
Indices: 34212124--34212162 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
34212114 TATGATATTG
*
34212124 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
34212139 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
34212154 TATCTTGGA
1 TATCTTGGA
34212163 CTTTTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:34212182 original size:30 final size:30
Alignment explanation
Indices: 34212124--34212182 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34212114 TATGATATTG
* *
34212124 TATCTTGGATTTCTTTATCTTGGATTTCTC
1 TATCTTGGATTTCTTAATCCTGGATTTCTC
*
34212154 TATCTTGGACTTT-TTAATCCTGGTTTTCT
1 TATCTTGGA-TTTCTTAATCCTGGATTTCT
34212183 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTAATCCTGGATTTCTC
Found at i:34216320 original size:40 final size:40
Alignment explanation
Indices: 34216276--34216385 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
34216266 TTCACAATTT
* *
34216276 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
34216316 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
34216356 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
34216386 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:34218476 original size:50 final size:50
Alignment explanation
Indices: 34218405--34218641 Score: 260
Period size: 50 Copynumber: 4.7 Consensus size: 50
34218395 TAAAATGGTA
** * *
34218405 TTAGGTCATGTGTGTAGTACTAAGGGCAGGCTACTACATGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * *
34218455 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * ** * *
34218505 CTTCGATCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCC-GATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG
* * *
34218556 TTAGGTCACGTGTGTAGTACTAAGTGCAAGTTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
34218606 TTAAGTCGCATGTGTAGTCCTAAGTGCAGGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
34218642 TGCTTACCAG
Statistics
Matches: 153, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 2 0.01
50 111 0.73
51 38 0.25
52 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:34218591 original size:101 final size:101
Alignment explanation
Indices: 34218410--34218591 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
34218400 TGGTATTAGG
* * *
34218410 TCATGTGTGTAGTACTAAGGGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCATGTGTGTAGCACTAAGGGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
*
34218475 TAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
66 TAAGTGCAAGCTACTATGCGTACCCGATAGCTTCGA
* * *
34218511 TCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCC-GATGGTTAGGTCACGTGTGTAGTA
1 TCATGTGTGTAGCACTAAGGGCAGGCTACTACATGTA-CCAGATGGTTAGGTCACATGTGTAGTA
*
34218575 CTAAGTGCAAGTTACTA
65 CTAAGTGCAAGCTACTA
34218592 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 70 0.97
102 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TCATGTGTGTAGCACTAAGGGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGATAGCTTCGA
Found at i:34222053 original size:25 final size:25
Alignment explanation
Indices: 34222025--34222081 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
34222015 ACTTACGTGT
* *
34222025 TTTCAGTACAGCCTATCTATAGTAG
1 TTTCAGTACAGACTATCTATAGCAG
* *
34222050 TTTC-GATACATACTATCTATAGCAT
1 TTTCAG-TACAGACTATCTATAGCAG
34222075 TTTCAGT
1 TTTCAGT
34222082 TTATAAACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (25 bp):
TTTCAGTACAGACTATCTATAGCAG
Found at i:34232966 original size:47 final size:44
Alignment explanation
Indices: 34232807--34233070 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 44
34232797 GATAAATTGT
* * * *
34232807 CGATGCCATGCCCCAGACATGGTCTTAAACTGGCTCTCATATGTGCATGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGT--A-GC
* * * * *
34232857 TGATGCATATCCCAGACATGTCTTACACTAGCACAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGC
*
34232901 CGATGCGTGTCCCAGACATGTCTTACACTGGCTATCTCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--A-GC
*
34232948 CGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGT-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGC
* * * * *
34232994 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGC
*
34233042 TGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
34233071 AGCCCTCGTC
Statistics
Matches: 177, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.03
44 31 0.18
45 3 0.02
46 21 0.12
47 60 0.34
48 30 0.17
49 15 0.08
50 12 0.07
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGC
Found at i:34233047 original size:94 final size:91
Alignment explanation
Indices: 34232807--34233073 Score: 301
Period size: 94 Copynumber: 2.9 Consensus size: 91
34232797 GATAAATTGT
* * * *
34232807 CGATGCCATGCCCCAGACATGGTCTTAAACTGGCTCTCATATGTGCATGCTGATGCATATCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG---GCTGATGCATGTCCCAG
34232872 ACATGTCTTACACTAGCACAACTCTTAGC
63 ACATGTCTTACACTAGCACAACTCTTAGC
* * *
34232901 CGATG-CGTGTCCCAGACAT-GTCTTACACTGGCTATCTC-TGTCGA-GGCCGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAT--ATGGCTGATGCATGTCCCA
* * *
34232962 GACATGTCTTACTCTGGCACTCATCTCTGT-GC
62 GACATGTCTTACACTAGCA--CAACTCT-TAGC
*
34232994 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGGCTGATGCATGTCCCAGAC
34233059 ATGTCTTACACTAGC
65 ATGTCTTACACTAGC
34233074 CCTCGTCTAG
Statistics
Matches: 145, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
91 31 0.21
92 12 0.08
93 32 0.22
94 56 0.39
95 14 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (91 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACAACTCTTAGC
Found at i:34233097 original size:94 final size:89
Alignment explanation
Indices: 34232807--34233121 Score: 264
Period size: 94 Copynumber: 3.4 Consensus size: 89
34232797 GATAAATTGT
* * * *
34232807 CGATGCCATGCCCCAGACATGGTCTTAAACTGGCTCTCATATGTGCATGCTGATGCATATCCCAG
1 CGAT-CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG---GCTGATGCATGTCCCAG
34232872 ACATGTCTTACACTAGCACAACTCT-TAG-C
62 ACATGTCTTACACTAGC-C--CTCTCTAGTC
* * * *
34232901 CGATGCGTGTCCCAGACAT-GTCTTACACTGGCTATCTC-TGTCGA-GGCCGATGCATGTCCCAG
1 CGATCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAT--ATGGCTGATGCATGTCCCAG
* *
34232963 ACATGTCTTACTCTGGCACTCATCTCT-GTGC
62 ACATGTCTTACACTAGC-C-C-TCTCTAGT-C
*
34232994 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCCCAGAC
1 CGAT-CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGGCTGATGCATGTCCCAGAC
34233059 ATGTCTTACACTAGCCCTCGTCTAGATTC
64 ATGTCTTACACTAGCCCTC-TCTAG--TC
* * * *
34233088 TGATACCATGTCCCAGATATAGACTTACACTGGC
1 CGAT-CCATGTCCCAGACATGGTCTTACACTGGC
34233122 GCACAAATCA
Statistics
Matches: 180, Mismatches: 24, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
90 1 0.01
91 38 0.21
92 17 0.09
93 26 0.14
94 83 0.46
95 15 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (89 bp):
CGATCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCCCTCTCTAGTC
Found at i:34254661 original size:2 final size:2
Alignment explanation
Indices: 34254654--34254682 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34254644 CATTTTAACT
34254654 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 T
34254683 CACAAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34257467 original size:29 final size:28
Alignment explanation
Indices: 34257435--34257537 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
34257425 GTGACGAGAT
* *
34257435 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
34257464 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
34257493 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
34257522 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34257538 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:34261257 original size:27 final size:28
Alignment explanation
Indices: 34261201--34261270 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
34261191 AAACTTGTAC
34261201 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
34261229 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
34261256 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34261271 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:34261281 original size:27 final size:27
Alignment explanation
Indices: 34261201--34261282 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
34261191 AAACTTGTAC
* *
34261201 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
34261229 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
34261256 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
34261283 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:34269280 original size:27 final size:28
Alignment explanation
Indices: 34269224--34269293 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
34269214 AAACTTGTAC
34269224 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
34269252 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
34269279 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34269294 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:34269304 original size:27 final size:27
Alignment explanation
Indices: 34269224--34269305 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
34269214 AAACTTGTAC
* *
34269224 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
34269252 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
34269279 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
34269306 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:34273850 original size:27 final size:27
Alignment explanation
Indices: 34273794--34273844 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34273784 TCGGAGGAAG
*
34273794 TACTG-TACTGGTGGCTCTGCCACAAC
1 TACTGTTACTAGTGGCTCTGCCACAAC
*
34273820 TACTGTTACTAGTGGCTTTGCCACA
1 TACTGTTACTAGTGGCTCTGCCACA
34273845 TTTACTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (27 bp):
TACTGTTACTAGTGGCTCTGCCACAAC
Found at i:34273855 original size:27 final size:27
Alignment explanation
Indices: 34273799--34273856 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
34273789 GGAAGTACTG
* *
34273799 TACTGGTGGCTCTGCCACAACTACTGT
1 TACTAGTGGCTCTGCCACAACTACTAT
* **
34273826 TACTAGTGGCTTTGCCACATTTACTAT
1 TACTAGTGGCTCTGCCACAACTACTAT
34273853 TACT
1 TACT
34273857 GGCAGCTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (27 bp):
TACTAGTGGCTCTGCCACAACTACTAT
Found at i:34275133 original size:42 final size:42
Alignment explanation
Indices: 34275086--34275177 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
34275076 TGGCCCTTAG
* * *
34275086 GCCCATTTCAATATCACATGTAATGTTAATGGATGTAAGTAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTAAGCAA
*
34275128 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTAAGCAA
34275170 GCCCATTT
1 GCCCATTT
34275178 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTAAGCAA
Found at i:34275353 original size:25 final size:26
Alignment explanation
Indices: 34275325--34275394 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
34275315 CTCTTTTAAT
34275325 AACTGGGGCAAAGCCCTTTCT-GATA
1 AACTGGGGCAAAGCCCTTTCTCGATA
*
34275350 AACTGGGGCAAAGCCCTTT-TCGGTA
1 AACTGGGGCAAAGCCCTTTCTCGATA
*
34275375 AACTGGGGCAGAGCCCTTTC
1 AACTGGGGCAAAGCCCTTTC
34275395 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTCTCGATA
Found at i:34276147 original size:27 final size:27
Alignment explanation
Indices: 34276117--34276181 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
34276107 GGGCATATTC
34276117 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
34276144 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
34276171 GTCTTTTTACC
1 GTCATTTTACC
34276182 TATTAGAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:34276265 original size:27 final size:27
Alignment explanation
Indices: 34276235--34276320 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
34276225 GTAAATCTAC
34276235 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
34276262 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
34276288 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
34276318 AAA
1 AAA
34276321 TTAGGGGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 21 0.41
28 8 0.16
29 20 0.39
30 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:34276339 original size:27 final size:27
Alignment explanation
Indices: 34276322--34276481 Score: 153
Period size: 27 Copynumber: 5.9 Consensus size: 27
34276312 TTTTGTAAAT
*
34276322 TAGGGGTATTTTGGTAATTTTACCAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * * *
34276348 TTGAGGGTATTTCGATAATTTCAAAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * * *
34276376 TAGTGGTATTTCGATAATTTTACAAAG
1 TAGGGGTATTTTGGTAATTTTACAAAC
34276403 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
34276430 TAGGGGTATTTTGGTAATTCTATCCTA-
1 TAGGGGTATTTTGGTAATTTTA-CAAAC
* *
34276457 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
34276482 TCGAGGGTAA
Statistics
Matches: 108, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 3 0.03
27 101 0.94
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:34276384 original size:54 final size:53
Alignment explanation
Indices: 34276297--34276448 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 53
34276287 TAGAAAGTCA
* ** * * *
34276297 AGGGTATTTCTATAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACCAATT
1 AGGGTATTTCGATAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAAGT
* * * *
34276350 GAGGGTATTTCGATAATTTCAAAAACTAGTGGTATTTCGATAATTTTACAAAGT
1 -AGGGTATTTCGATAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAAGT
* * *
34276404 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 A-GGGTATTTCGATAATTTTAAAAACTAGGGGTATTTTGGTAATT
34276449 CTATCCTATA
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 79 0.99
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTTAAAAACTAGGGGTATTTTGGTAATTTTACAAAGT
Found at i:34276461 original size:54 final size:53
Alignment explanation
Indices: 34276322--34276481 Score: 185
Period size: 54 Copynumber: 3.0 Consensus size: 53
34276312 TTTTGTAAAT
* * * *
34276322 TAGGGGTATTTTGGTAATTTTACCAATTGAGGGTATTTCGATAATTTCAAAAAC
1 TAGGGGTATTTTGGTAATTTTACCAATAG-GGGTATTTTGGTAATTTCACAAAC
* * * * *
34276376 TAGTGGTATTTCGATAATTTTACAAAGTAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACCAA-TAGGGGTATTTTGGTAATTTCACAAAC
* * *
34276430 TAGGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTA-CCAATAGGGGTATTTTGGTAATTTCACAA
34276482 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
54 83 0.95
55 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (53 bp):
TAGGGGTATTTTGGTAATTTTACCAATAGGGGTATTTTGGTAATTTCACAAAC
Found at i:34276514 original size:27 final size:27
Alignment explanation
Indices: 34276480--34276677 Score: 290
Period size: 27 Copynumber: 7.3 Consensus size: 27
34276470 GTAATTTCAC
*
34276480 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
34276507 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTATA
* *
34276534 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
34276561 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
*
34276588 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
* * * *
34276615 CATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
34276642 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTTTATA
34276669 AATCGAGGG
1 AATCGAGGG
34276678 CATTTCAGTA
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTATA
Found at i:34289992 original size:16 final size:16
Alignment explanation
Indices: 34289973--34290004 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34289963 GGCAAAAGTC
34289973 GAAATGCCGAAAAGCT
1 GAAATGCCGAAAAGCT
*
34289989 GAAATGTCGAAAAGCT
1 GAAATGCCGAAAAGCT
34290005 AAAAGATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.16
Consensus pattern (16 bp):
GAAATGCCGAAAAGCT
Found at i:34290260 original size:29 final size:29
Alignment explanation
Indices: 34290218--34290364 Score: 181
Period size: 29 Copynumber: 5.1 Consensus size: 29
34290208 GAAAGCATGA
34290218 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
34290247 ATATGAATGTGATTTAGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
34290276 ATATGAATGAGA-TTGGGCCTAGTGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
34290304 ATATGAATATGATTTGGACCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* ** *
34290333 ATACGAATAAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
34290361 ATAT
1 ATAT
34290365 ACATGTATGT
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 41 0.40
29 61 0.60
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:34290307 original size:57 final size:57
Alignment explanation
Indices: 34290218--34290364 Score: 206
Period size: 57 Copynumber: 2.6 Consensus size: 57
34290208 GAAAGCATGA
* * * *
34290218 ATATGAATGTGATTTGGGCCTAATGGGCCATATGAATGTGATTTAGG-CCTAATGGGTC
1 ATATGAATGAGA-TTGGGCCTAGTGGGCCATATGAATATGATTT-GGACCTAATGGGCC
*
34290276 ATATGAATGAGATTGGGCCTAGTGGGTCATATGAATATGATTTGGACCTAATGGGCC
1 ATATGAATGAGATTGGGCCTAGTGGGCCATATGAATATGATTTGGACCTAATGGGCC
* *
34290333 ATACGAATAAGATTGGGCCTAGTGGGCCATAT
1 ATATGAATGAGATTGGGCCTAGTGGGCCATAT
34290365 ACATGTATGT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 2 0.03
57 67 0.84
58 11 0.14
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (57 bp):
ATATGAATGAGATTGGGCCTAGTGGGCCATATGAATATGATTTGGACCTAATGGGCC
Found at i:34294868 original size:28 final size:29
Alignment explanation
Indices: 34294756--34294901 Score: 206
Period size: 29 Copynumber: 5.1 Consensus size: 29
34294746 GAAAGCATGA
34294756 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
34294785 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
34294814 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
34294843 GTATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
34294871 ATATGAATAAGA-TTGGGCCTAATGAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
34294899 ATA
1 ATA
34294902 CGCATGTATG
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 42 0.40
29 64 0.60
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:34295881 original size:16 final size:16
Alignment explanation
Indices: 34295860--34295896 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
34295850 TGAGAAGTTG
34295860 AACATGGGTTTCCTAA
1 AACATGGGTTTCCTAA
34295876 AACATGGGTTTCCTAA
1 AACATGGGTTTCCTAA
34295892 AACAT
1 AACAT
34295897 AGTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (16 bp):
AACATGGGTTTCCTAA
Found at i:34300906 original size:40 final size:40
Alignment explanation
Indices: 34300862--34301009 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
34300852 TTAACCACAA
* * *** *
34300862 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
34300902 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
34300942 GCACGAA-TGCCTTCAGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
34300982 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAATTGCCTTCGGGTCTTAGCCCGG
34301010 GTATCATTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:34303932 original size:46 final size:46
Alignment explanation
Indices: 34303882--34304057 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
34303872 TGGTTGAGCA
* *
34303882 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
34303928 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
34303973 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
34304021 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34304058 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 64 0.59
47 28 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:34304038 original size:93 final size:93
Alignment explanation
Indices: 34303879--34304049 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
34303869 GGATGGTTGA
* * *
34303879 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34303944 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
34303972 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34304037 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34304050 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:34305597 original size:58 final size:58
Alignment explanation
Indices: 34305507--34305622 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
34305497 GTGTTTGACG
*
34305507 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCCTTATGTAAATAATGCAT
1 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCATTATGTAAATAATGCAT
34305565 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCATTATGTAAATAATGCAT
1 ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCATTATGTAAATAATGCAT
34305623 TATTTTAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (58 bp):
ATTAGGTCCTATTTCTACTATTTTTGTACTGAGGTAAGTCATTATGTAAATAATGCAT
Found at i:34305826 original size:41 final size:41
Alignment explanation
Indices: 34305775--34305928 Score: 193
Period size: 41 Copynumber: 3.7 Consensus size: 41
34305765 CCAAGATTAT
*
34305775 GTGTAAGACCATATCTGGGATATGGCATC-AGTATGAGATTC
1 GTGTAAGACCATATCTAGGATATGGCATCGA-TATGAGATTC
* *
34305816 GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGATTTC
1 GTGTAAGACCATATCTAGGATATGGCATCGATATGAGA-TTC
* * **
34305858 GTGTAAGACCATAGCTAGGCTATTGGCATCGATACCAGATTAC
1 GTGTAAGACCATATCTAGGATA-TGGCATCGATATGAGATT-C
*
34305901 ATGTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTAGGATATGGCAT
34305929 TGGTACGATT
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
41 35 0.35
42 31 0.31
43 33 0.33
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTC
Found at i:34305947 original size:85 final size:84
Alignment explanation
Indices: 34305773--34305947 Score: 189
Period size: 85 Copynumber: 2.1 Consensus size: 84
34305763 TACCAAGATT
* * ** * *
34305773 ATGTGTAAGACCATATCTGGGATATGGCATCAGTATGAGATTCGTGTAAGACCATATCTGGGATA
1 ATGTGTAAGACCATAGCTAGGATATGGCATCAGTACCAGATTCATGTAAGACCATATCTAGGATA
*
34305838 TGGCATCGATGTGAGATTTC
66 TGGCATCGA-GTGAGATTCC
*
34305858 --GTGTAAGACCATAGCTAGGCTATTGGCATC-GATACCAGATTACATGTAAGACCATATCTAGG
1 ATGTGTAAGACCATAGCTAGGATA-TGGCATCAG-TACCAGATT-CATGTAAGACCATATCTAGG
*
34305920 ATATGGCATTG-GT-ACGATTCC
63 ATATGGCATCGAGTGA-GATTCC
34305941 ATGTGTA
1 ATGTGTA
34305948 CGGGACTCCC
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
82 1 0.01
83 27 0.36
84 14 0.19
85 33 0.44
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (84 bp):
ATGTGTAAGACCATAGCTAGGATATGGCATCAGTACCAGATTCATGTAAGACCATATCTAGGATA
TGGCATCGAGTGAGATTCC
Found at i:34308500 original size:40 final size:40
Alignment explanation
Indices: 34308441--34308609 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
34308431 CGGGACTTTA
* * *
34308441 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
34308481 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
34308521 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
34308561 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
34308601 CCCGGATAT
1 CCCGGATAT
34308610 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:34314279 original size:50 final size:50
Alignment explanation
Indices: 34314221--34314321 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
34314211 AAAATATAAA
* * * *
34314221 CTCATTCTTTTGATTATTTCTGAGTAATCCTTGTACATCTGCAAATCTAT
1 CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATCTGCAAATCTAT
* *
34314271 CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATTTGCAAATGTAT
1 CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATCTGCAAATCTAT
34314321 C
1 C
34314322 ATTTCTCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (50 bp):
CTCATTCTTTCGATCATGTCTGAGTAATCCATGTACATCTGCAAATCTAT
Found at i:34314338 original size:6 final size:6
Alignment explanation
Indices: 34314320--34314381 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
34314310 TGCAAATGTA
* * * * *
34314320 TCATTT CTCATTT TCATTT TCATTT CCATTT GCATTT GCATTA GCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
*
34314369 CCATTT TCATTT T
1 TCATTT TCATTT T
34314382 GAGAAACCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
6 43 0.88
7 6 0.12
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (6 bp):
TCATTT
Found at i:34327181 original size:9 final size:9
Alignment explanation
Indices: 34327161--34327290 Score: 60
Period size: 9 Copynumber: 14.3 Consensus size: 9
34327151 TTAATATAAA
34327161 AAATTATA-
1 AAATTATAT
34327169 AAATTATAT
1 AAATTATAT
34327178 AAATTATAT
1 AAATTATAT
34327187 AAA-TAT-T
1 AAATTATAT
* *
34327194 AAAAATATAA
1 -AAATTATAT
* *
34327204 AAACTCTAT
1 AAATTATAT
34327213 AAATTTATAAAT
1 AAA-TTAT--AT
34327225 AAATTATA-
1 AAATTATAT
34327233 AATATTAT-T
1 AA-ATTATAT
* *
34327242 GAAAATATAAA
1 -AAATTAT-AT
34327253 AAATCTA-AT
1 AAAT-TATAT
34327262 AAATTATA-
1 AAATTATAT
*
34327270 AAAATATAT
1 AAATTATAT
34327279 AAAATTA-AT
1 -AAATTATAT
34327288 AAA
1 AAA
34327291 ATTTATTTAA
Statistics
Matches: 94, Mismatches: 12, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
7 1 0.01
8 28 0.30
9 42 0.45
10 12 0.13
11 6 0.06
12 5 0.05
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (9 bp):
AAATTATAT
Found at i:34327189 original size:19 final size:19
Alignment explanation
Indices: 34327155--34327303 Score: 84
Period size: 18 Copynumber: 8.1 Consensus size: 19
34327145 TTTAATTTAA
*
34327155 TATAAAAAATTATA-AAAT
1 TATATAAAATTATATAAAT
34327173 TATAT-AAATTATATAAA-
1 TATATAAAATTATATAAAT
* * *
34327190 TAT-TAAAAATATAAAAAC
1 TATATAAAATTATATAAAT
* *
34327208 TCTATAAATTTATAAATAAAT
1 TATATAAAATTAT--ATAAAT
* *
34327229 TATA-AATATTAT-TGAAAA
1 TATATAAAATTATAT-AAAT
*
34327247 TATAAAAAATCTA-ATAAAT
1 TATATAAAAT-TATATAAAT
34327266 TATA-AAAA-TATATAAAAT
1 TATATAAAATTATAT-AAAT
*
34327284 TA-ATAAAATTTATTTAAAT
1 TATATAAAA-TTATATAAAT
34327303 T
1 T
34327304 TTTTGTAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
16 3 0.03
17 25 0.25
18 30 0.30
19 23 0.23
20 13 0.13
21 7 0.07
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (19 bp):
TATATAAAATTATATAAAT
Found at i:34327196 original size:26 final size:25
Alignment explanation
Indices: 34327161--34327224 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
34327151 TTAATATAAA
* *
34327161 AAATTATAAAATTATATAAATTATAT
1 AAATT-TAAAATTATAAAAACTATAT
* *
34327187 AAATATTAAAAATATAAAAACTCTAT
1 AAAT-TTAAAATTATAAAAACTATAT
34327213 AAATTTATAAAT
1 AAATTTA-AAAT
34327225 AAATTATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 3 0.10
26 27 0.87
27 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATTTAAAATTATAAAAACTATAT
Found at i:34327340 original size:20 final size:21
Alignment explanation
Indices: 34327266--34327353 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 21
34327256 TCTAATAAAT
*
34327266 TATAAAAATATA-TAAAATTA
1 TATAAAAATGTATTAAAATTA
* * *
34327286 -AT-AAAATTTATTTAAATTTTT
1 TATAAAAATGTA-TTAAA-ATTA
* *
34327307 TGTAAAAATGTATTAAAATTC
1 TATAAAAATGTATTAAAATTA
*
34327328 TATAAAAAT-TATTATAATTA
1 TATAAAAATGTATTAAAATTA
34327348 TATAAA
1 TATAAA
34327354 GTATGAAAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
18 7 0.13
19 2 0.04
20 19 0.36
21 12 0.23
22 6 0.11
23 7 0.13
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
TATAAAAATGTATTAAAATTA
Found at i:34327405 original size:36 final size:36
Alignment explanation
Indices: 34327328--34327407 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
34327318 ATTAAAATTC
* * * *
34327328 TATAAAAATTATTATAATTATATAAAGTATGAAAAG
1 TATAAAAATTATTAAAATTATATAAACTATAAAAAA
34327364 TATAAAAA-TATTAAAATTTATATAAACT-TAAAAAA
1 TATAAAAATTATTAAAA-TTATATAAACTATAAAAAA
34327399 TCATAAAAA
1 T-ATAAAAA
34327408 CTTAAATTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 13 0.34
36 25 0.66
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (36 bp):
TATAAAAATTATTAAAATTATATAAACTATAAAAAA
Found at i:34327888 original size:9 final size:9
Alignment explanation
Indices: 34327837--34328099 Score: 65
Period size: 9 Copynumber: 28.2 Consensus size: 9
34327827 AAAAAAAAAA
*
34327837 TTATAGTTT
1 TTATAATTT
34327846 TTATAAGTTT
1 TTATAA-TTT
* *
34327856 ATATAAATT
1 TTATAATTT
34327865 TTA-ATATTT
1 TTATA-ATTT
*
34327874 TAATAATTT
1 TTATAATTT
34327883 TTATAATATT
1 TTATAAT-TT
*
34327893 TTATTATCTT
1 TTATAAT-TT
* * *
34327903 TTAAAAACTC
1 TT-ATAATTT
* *
34327913 TAATACTTT
1 TTATAATTT
34327922 TT-TAATTT
1 TTATAATTT
* *
34327930 TAAAAATTT
1 TTATAATTT
*
34327939 TAAATCAA-TT
1 T-TAT-AATTT
34327949 TTACTAATTT
1 TTA-TAATTT
* **
34327959 TATAAAAAAAT
1 T-T-ATAATTT
*
34327970 ATATAATTT
1 TTATAATTT
* *
34327979 ATTAGATTTT
1 -TTATAATTT
34327989 TTAT-ATTT
1 TTATAATTT
*
34327997 TTATAATAT
1 TTATAATTT
*
34328006 TTATAAGTT
1 TTATAATTT
34328015 TTAT-ATTT
1 TTATAATTT
34328023 TTAATAAGTTT
1 TT-ATAA-TTT
*
34328034 GTATTAATTT
1 TTA-TAATTT
*
34328044 TAAT-ATTT
1 TTATAATTT
34328052 TT-TAATATT
1 TTATAAT-TT
**
34328061 CAATAATTT
1 TTATAATTT
* *
34328070 TTTTATTTTT
1 TTATA-ATTT
*
34328080 TTATAGTTT
1 TTATAATTT
34328089 TTCAT-ATTT
1 TT-ATAATTT
34328098 TT
1 TT
34328100 CCTGTAATTA
Statistics
Matches: 178, Mismatches: 53, Indels: 46
0.64 0.19 0.17
Matches are distributed among these distances:
7 1 0.01
8 26 0.15
9 77 0.43
10 58 0.33
11 15 0.08
12 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATAATTT
Found at i:34327891 original size:20 final size:20
Alignment explanation
Indices: 34327866--34328071 Score: 72
Period size: 20 Copynumber: 10.9 Consensus size: 20
34327856 ATATAAATTT
34327866 TAATATTTTAATAATTTTTA
1 TAATATTTTAATAATTTTTA
*
34327886 TAATATTTT-ATTATCTTTTA
1 TAATATTTTAATAAT-TTTTA
* * * *
34327906 -AAAACTCTAATACTTTTT-
1 TAATATTTTAATAATTTTTA
*
34327924 T-A-ATTTTAA-AAATTTTA
1 TAATATTTTAATAATTTTTA
*
34327941 -AATCAATTTTACTAA-TTTTA
1 TAAT--ATTTTAATAATTTTTA
* ***
34327961 TAAAAAAATATATAATTTATTA
1 TAATATTTTA-ATAATTT-TTA
* *
34327983 -GAT-TTTTTAT-ATTTTTA
1 TAATATTTTAATAATTTTTA
*
34328000 TAATA-TTT-ATAAGTTTTA
1 TAATATTTTAATAATTTTTA
*
34328018 T-AT-TTTTAATAAGTTTGTA
1 TAATATTTTAATAA-TTTTTA
*
34328037 TTA-ATTTTAAT-ATTTTT-
1 TAATATTTTAATAATTTTTA
*
34328054 TAATA-TTCAATAATTTTT
1 TAATATTTTAATAATTTTT
34328072 TTATTTTTTT
Statistics
Matches: 134, Mismatches: 29, Indels: 48
0.64 0.14 0.23
Matches are distributed among these distances:
16 5 0.04
17 23 0.17
18 32 0.24
19 24 0.18
20 40 0.30
21 7 0.05
22 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TAATATTTTAATAATTTTTA
Found at i:34328022 original size:26 final size:26
Alignment explanation
Indices: 34327987--34328079 Score: 84
Period size: 26 Copynumber: 3.5 Consensus size: 26
34327977 TTATTAGATT
34327987 TTTTATATTTTTATAATATT-TATAA
1 TTTTATATTTTTATAATATTCTATAA
*
34328012 GTTTTATATTTTTAATAAGT-TTGTATTAA
1 -TTTTATATTTTT-ATAA-TATTCTA-TAA
*
34328041 TTTTAATATTTTT-TAATATTCAATAA
1 TTTT-ATATTTTTATAATATTCTATAA
*
34328067 TTTTTTTATTTTT
1 -TTTTATATTTTT
34328080 TTATAGTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
26 23 0.40
27 16 0.28
28 7 0.12
29 11 0.19
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (26 bp):
TTTTATATTTTTATAATATTCTATAA
Found at i:34328998 original size:25 final size:25
Alignment explanation
Indices: 34328964--34329015 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
34328954 TTGACTTAAA
34328964 TGTTAGATTTTTAAACAAGGCAACT
1 TGTTAGATTTTTAAACAAGGCAACT
*
34328989 TGTTAGATTTTTAAACAAGGCAGCT
1 TGTTAGATTTTTAAACAAGGCAACT
34329014 TG
1 TG
34329016 CATGGCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (25 bp):
TGTTAGATTTTTAAACAAGGCAACT
Found at i:34338506 original size:24 final size:24
Alignment explanation
Indices: 34338479--34338529 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
34338469 GACAAGCACT
34338479 CTATTGATCTTCGAGATGTTTGAG
1 CTATTGATCTTCGAGATGTTTGAG
34338503 CTATTGATCTTCGAGATGTTTGAG
1 CTATTGATCTTCGAGATGTTTGAG
34338527 CTA
1 CTA
34338530 ACAATTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.41
Consensus pattern (24 bp):
CTATTGATCTTCGAGATGTTTGAG
Found at i:34342012 original size:17 final size:17
Alignment explanation
Indices: 34341990--34342029 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
34341980 TAAAAAAGTG
*
34341990 AAGGTTTACCGGGACAA
1 AAGGTTTACCGGGAAAA
**
34342007 AAGGTTTATTGGGAAAA
1 AAGGTTTACCGGGAAAA
34342024 AAGGTT
1 AAGGTT
34342030 GGACAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.30, T:0.25
Consensus pattern (17 bp):
AAGGTTTACCGGGAAAA
Found at i:34343619 original size:14 final size:14
Alignment explanation
Indices: 34343600--34343642 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
34343590 GTGGACTCTC
34343600 AAATGTGGATTCAT
1 AAATGTGGATTCAT
* *
34343614 ACATGTAGATTCAT
1 AAATGTGGATTCAT
34343628 AAATGTGGATTCAT
1 AAATGTGGATTCAT
34343642 A
1 A
34343643 GATACAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (14 bp):
AAATGTGGATTCAT
Found at i:34343651 original size:28 final size:27
Alignment explanation
Indices: 34343600--34343702 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 27
34343590 GTGGACTCTC
* *
34343600 AAATGTGGATTCATACATGTAGATTCAT
1 AAATGTGGATTCATAGAT-AAGATTCAT
*
34343628 AAATGTGGATTCATAGATACAGATTTAT
1 AAATGTGGATTCATAGATA-AGATTCAT
* **
34343656 ACATACGGATTCATAGATAAGGATTCAT
1 AAATGTGGATTCATAGATAA-GATTCAT
** * *
34343684 ATGTGAGGATTCAAAGATA
1 AAATGTGGATTCATAGATA
34343703 TGTATTTATA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (27 bp):
AAATGTGGATTCATAGATAAGATTCAT
Found at i:34343692 original size:14 final size:14
Alignment explanation
Indices: 34343634--34343702 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
34343624 TCATAAATGT
34343634 GGATTCATAGATACA
1 GGATTCATAGATA-A
* * *
34343649 -GATTTATACATAC
1 GGATTCATAGATAA
34343662 GGATTCATAGATAA
1 GGATTCATAGATAA
*
34343676 GGATTCATATG-TGA
1 GGATTCATA-GATAA
*
34343690 GGATTCAAAGATA
1 GGATTCATAGATA
34343703 TGTATTTATA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
13 1 0.02
14 40 0.95
15 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (14 bp):
GGATTCATAGATAA
Found at i:34345364 original size:28 final size:28
Alignment explanation
Indices: 34345293--34345366 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
34345283 ATAATAAGCC
* *
34345293 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
34345321 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
34345349 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
34345367 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34350110 original size:29 final size:29
Alignment explanation
Indices: 34350068--34350140 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
34350058 GTGACAAGAT
34350068 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
34350097 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
34350126 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34350141 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:34350159 original size:29 final size:29
Alignment explanation
Indices: 34350127--34350199 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
34350117 TGAAAAGTAT
* * *
34350127 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
34350156 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
34350185 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
34350200 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:34356483 original size:28 final size:29
Alignment explanation
Indices: 34356451--34356549 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
34356441 ATAATAAGCC
*
34356451 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
34356479 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
34356507 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
34356536 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34356550 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:34358691 original size:68 final size:70
Alignment explanation
Indices: 34358619--34358816 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
34358609 ACACCCTGTA
* * * *
34358619 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
34358681 ATAAAT
65 ATAAAT
*
34358687 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
34358752 ATAAAT
65 ATAAAT
*
34358758 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
34358817 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:34358730 original size:41 final size:41
Alignment explanation
Indices: 34358685--34358802 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
34358675 TGAAAGATAA
34358685 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
34358726 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
34358756 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
34358797 ATGTAG
1 ATGTAG
34358803 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:34358742 original size:71 final size:71
Alignment explanation
Indices: 34358653--34358816 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34358643 GAGATGTATC
34358653 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34358718 AGGACA
66 AGGACA
34358724 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34358789 AGGACA
66 AGGACA
34358795 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
34358817 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:34366219 original size:68 final size:70
Alignment explanation
Indices: 34366147--34366344 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
34366137 ACACCCTGTA
* * * *
34366147 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
34366209 ATAAAT
65 ATAAAT
*
34366215 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
34366280 ATAAAT
65 ATAAAT
*
34366286 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
34366345 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:34366258 original size:41 final size:41
Alignment explanation
Indices: 34366213--34366330 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
34366203 TGAAAGATAA
34366213 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
34366254 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
34366284 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
34366325 ATGTAG
1 ATGTAG
34366331 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:34366270 original size:71 final size:71
Alignment explanation
Indices: 34366181--34366344 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34366171 GAGATGTATC
34366181 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34366246 AGGACA
66 AGGACA
34366252 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34366317 AGGACA
66 AGGACA
34366323 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
34366345 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:34370057 original size:21 final size:22
Alignment explanation
Indices: 34370031--34370079 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
34370021 ACCCCTCCAT
* *
34370031 GATGCCTTA-TTTTTGTACTCG
1 GATGCCTTAGTTTTCGTACTCA
34370052 GATGCC-TAGTTTTCGTACTCA
1 GATGCCTTAGTTTTCGTACTCA
34370073 GATGCCT
1 GATGCCT
34370080 CATATCCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.41
Consensus pattern (22 bp):
GATGCCTTAGTTTTCGTACTCA
Found at i:34380340 original size:20 final size:20
Alignment explanation
Indices: 34380317--34380359 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
34380307 TTGCACGTCT
* *
34380317 GTGCCTCTATTTACACTTCA
1 GTGCCGCTATATACACTTCA
34380337 GTGCCGCTATATACACTTCA
1 GTGCCGCTATATACACTTCA
34380357 GTG
1 GTG
34380360 TCCCTGTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (20 bp):
GTGCCGCTATATACACTTCA
Found at i:34381956 original size:40 final size:40
Alignment explanation
Indices: 34381892--34382039 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
34381882 TTGATGACAG
* *
34381892 TTCGGCTATGTATGGCACTTAGTGTGTGAATCAAGATAGC
1 TTCGACTATGTATGGCACTTAGTGTGCGAATCAAGATAGC
* * * * *
34381932 TTCGACTATCTATGACACTTAGTGTGCGATTCTAGATAGA
1 TTCGACTATGTATGGCACTTAGTGTGCGAATCAAGATAGC
** * * *
34381972 TTCGGTTATGTATGGCATTTAGTGTGCGAGATTAAAATAGC
1 TTCGACTATGTATGGCACTTAGTGTGCGA-ATCAAGATAGC
34382013 TTCGACTATGTATTGGCACTTAGTGTG
1 TTCGACTATGTA-TGGCACTTAGTGTG
34382040 TGAGAATTCG
Statistics
Matches: 86, Mismatches: 20, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 57 0.66
41 16 0.19
42 13 0.15
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (40 bp):
TTCGACTATGTATGGCACTTAGTGTGCGAATCAAGATAGC
Found at i:34383716 original size:17 final size:17
Alignment explanation
Indices: 34383694--34383728 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34383684 GTTGCTCAAC
34383694 AACCTCCAACCCCTCCT
1 AACCTCCAACCCCTCCT
*
34383711 AACCTCCAACCTCTCCT
1 AACCTCCAACCCCTCCT
34383728 A
1 A
34383729 GTCCCCAACC
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:0.26, C:0.54, G:0.00, T:0.20
Consensus pattern (17 bp):
AACCTCCAACCCCTCCT
Found at i:34389341 original size:40 final size:40
Alignment explanation
Indices: 34389292--34389442 Score: 160
Period size: 40 Copynumber: 3.7 Consensus size: 40
34389282 TTGATGACAA
* *
34389292 TTCGGCTATGTGTGGCACTTAGTGTGTGATTCAAGATAGC
1 TTCGACTATGTATGGCACTTAGTGTGTGATTCAAGATAGC
* * * * *
34389332 TTCGACTATGTATAGCACGTAGCGTGCGATTCTAGATAGC
1 TTCGACTATGTATGGCACTTAGTGTGTGATTCAAGATAGC
** * *
34389372 TTCGGTTATGTATGGCACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGACTATGTATGGCACTTAGTGT--GTGATTCAAGATAGC
*
34389413 TTTGACTATGTATTGGCACTTAGTGTGTGA
1 TTCGACTATGTA-TGGCACTTAGTGTGTGA
34389443 GAAGTCGAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
40 56 0.63
41 15 0.17
42 18 0.20
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
TTCGACTATGTATGGCACTTAGTGTGTGATTCAAGATAGC
Found at i:34390619 original size:11 final size:11
Alignment explanation
Indices: 34390603--34390636 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34390593 TTGTACATGA
34390603 GGTTGGACACG
1 GGTTGGACACG
34390614 GGTTGGACACG
1 GGTTGGACACG
*
34390625 GGCTGGGACACG
1 GG-TTGGACACG
34390637 ACCATGTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.18, C:0.21, G:0.47, T:0.15
Consensus pattern (11 bp):
GGTTGGACACG
Found at i:34400068 original size:29 final size:29
Alignment explanation
Indices: 34400035--34400166 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
34400025 CCTCCGAACT
** * * *
34400035 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
34400064 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34400093 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34400122 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34400151 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34400167 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34407534 original size:40 final size:40
Alignment explanation
Indices: 34407426--34407595 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
34407416 CGGGATTTAA
* * * * *
34407426 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
34407466 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34407506 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34407546 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34407586 CCGGATATAT
1 CCGGATATAT
34407596 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:34415633 original size:40 final size:40
Alignment explanation
Indices: 34415511--34415716 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 40
34415501 TCGGATTTAA
* * * * *
34415511 CCGGATATAGCGACTCGCACGATTGCCTTC-GGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
34415550 CCGGATTTGGT-GACTTGCACAAAGGCCTTC-GGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34415589 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34415629 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34415669 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34415709 CCGGATAT
1 CCGGATAT
34415717 TTCCAATGTT
Statistics
Matches: 149, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 51 0.34
40 97 0.65
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:34422273 original size:29 final size:29
Alignment explanation
Indices: 34422240--34422304 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
34422230 GTGACGAGAT
34422240 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34422269 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
34422298 CGGCACT
1 TGGCACT
34422305 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34430227 original size:29 final size:29
Alignment explanation
Indices: 34430194--34430258 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
34430184 GTGACGAGAT
34430194 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34430223 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
34430252 CGGCACT
1 TGGCACT
34430259 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34440505 original size:40 final size:40
Alignment explanation
Indices: 34440440--34440534 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
34440430 GACTATGCTC
*
34440440 GGCACTAAGTGTGCGGTTCGAAATAGCTTCTGCTACA-AA
1 GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACATAA
* * *
34440479 TGGCACTAAGTGTGCGTGTT-GGAATAGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACATAA
34440520 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
34440535 ATACCGAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.92
41 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACATAA
Found at i:34441224 original size:24 final size:24
Alignment explanation
Indices: 34441191--34441288 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
34441181 AAGGCTGTCA
*
34441191 GGAGAAGATTTAGGAGTTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
34441215 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
34441239 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
34441263 GGAGAAGATTTAGGAGTTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
34441288 G
1 G
34441289 AGCAGGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 64 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.39, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:34442985 original size:33 final size:34
Alignment explanation
Indices: 34442908--34442988 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
34442898 TATGGGCCAT
*
34442908 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
34442942 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
34442975 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
34442989 GGGCTTAAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:34442993 original size:32 final size:31
Alignment explanation
Indices: 34442908--34442993 Score: 73
Period size: 32 Copynumber: 2.6 Consensus size: 31
34442898 TATGGGCCAT
*
34442908 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
34442942 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
34442975 ACTGTTATCTGAATGGGCT
1 ACTGTTATCTGAATGGGCT
34442994 TAAGCCCGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
32 20 0.49
33 10 0.24
34 9 0.22
35 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:34451790 original size:15 final size:16
Alignment explanation
Indices: 34451761--34451790 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34451751 CAAACATGCT
34451761 TTAACACATTATCAAA
1 TTAACACATTATCAAA
34451777 TTAACACA-TATCAA
1 TTAACACATTATCAA
34451791 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:34453587 original size:18 final size:18
Alignment explanation
Indices: 34453564--34453602 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
34453554 TTATGGACTC
34453564 CAAAAAATCCCATTCATG
1 CAAAAAATCCCATTCATG
34453582 CAAAAAATCCCATTCATG
1 CAAAAAATCCCATTCATG
34453600 CAA
1 CAA
34453603 CAATTTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.21
Consensus pattern (18 bp):
CAAAAAATCCCATTCATG
Found at i:34453728 original size:28 final size:29
Alignment explanation
Indices: 34453696--34453752 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
34453686 TCCTCTTAAA
* *
34453696 TAACAACTAATATCTCAA-ATTCATCAAT
1 TAACAACTAAAATCACAAGATTCATCAAT
* *
34453724 TAACATCTAAAATCACAAGGTTCATCAAT
1 TAACAACTAAAATCACAAGATTCATCAAT
34453753 GACAGCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.30
Consensus pattern (29 bp):
TAACAACTAAAATCACAAGATTCATCAAT
Found at i:34461968 original size:71 final size:70
Alignment explanation
Indices: 34461887--34462049 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
34461877 GAGATGTATC
34461887 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34461952 AGGACA
66 AGGA-A
34461958 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34462023 AGGAA
66 AGGAA
34462028 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
34462050 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 23 0.25
71 69 0.75
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGAA
Found at i:34468151 original size:2 final size:2
Alignment explanation
Indices: 34468144--34468170 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34468134 GAGACTAGTC
34468144 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34468171 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34470693 original size:210 final size:210
Alignment explanation
Indices: 34470331--34470750 Score: 822
Period size: 210 Copynumber: 2.0 Consensus size: 210
34470321 AACATATACT
34470331 TATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTACTCATTTTCACTCAAAACCGAGTAGCA
1 TATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTACTCATTTTCACTCAAAACCGAGTAGCA
34470396 CAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACATCAAAATAAACACATTTCA
66 CAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACATCAAAATAAACACATTTCA
34470461 CCTATGGGTATTTTTCCAAATATGAACCCTAGCTTAAATTATTGCTAGAATAAGCTTAATCAAAT
131 CCTATGGGTATTTTTCCAAATATGAACCCTAGCTTAAATTATTGCTAGAATAAGCTTAATCAAAT
34470526 TACCAGAATTCCAAA
196 TACCAGAATTCCAAA
34470541 TATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTACTCATTTTCACTCAAAACCGAGTAGCA
1 TATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTACTCATTTTCACTCAAAACCGAGTAGCA
*
34470606 CAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACGTCAAAATAAACACATTTCA
66 CAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACATCAAAATAAACACATTTCA
34470671 CCTATGGGTATTTTTCCAAATATGAACCCTAGCTTAAATTATTGCTAGAATAAGCTTAATCAAAT
131 CCTATGGGTATTTTTCCAAATATGAACCCTAGCTTAAATTATTGCTAGAATAAGCTTAATCAAAT
*
34470736 TACCGGAATTCCAAA
196 TACCAGAATTCCAAA
34470751 AACGTAAAGA
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
210 208 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (210 bp):
TATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTACTCATTTTCACTCAAAACCGAGTAGCA
CAAGTTGTCTAACATAATTTAAAACCTCATATTCTATCATAAAACATCAAAATAAACACATTTCA
CCTATGGGTATTTTTCCAAATATGAACCCTAGCTTAAATTATTGCTAGAATAAGCTTAATCAAAT
TACCAGAATTCCAAA
Found at i:34480200 original size:46 final size:48
Alignment explanation
Indices: 34480079--34480216 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
34480069 TACCACGGTT
* * *
34480079 ATACGTGTAACGTGGTGCTAAGTGGATATACCATGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
34480127 ATACATGTAACGTGGTGCTAAGTGGATATGCAACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
34480175 ATTCAT-TAACGTGGT-CTATGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
34480217 GTAACGTAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 22 0.28
47 9 0.12
48 47 0.60
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:34480255 original size:38 final size:37
Alignment explanation
Indices: 34480181--34480256 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
34480171 ATTGATTCAT
* * *
34480181 TAACGTGGTCTATGTGGATATACCACGGTTAAACATG
1 TAACGTAGTCTAAGTGGATATACCACAGTTAAACATG
* * *
34480218 TAACGTAGTGCTAAGTGGATATGCCATAGTTATACATG
1 TAACGTAGT-CTAAGTGGATATACCACAGTTAAACATG
34480256 T
1 T
34480257 TAATTTGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 8 0.25
38 24 0.75
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (37 bp):
TAACGTAGTCTAAGTGGATATACCACAGTTAAACATG
Found at i:34487290 original size:47 final size:48
Alignment explanation
Indices: 34487183--34487298 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 48
34487173 GGTGCTAAGT
* * * **
34487183 GGATATACCACGATTACACATAATGATACATGTAACGTGGTGCTAAGT
1 GGATATACCACGGTTACACATAATGATACATGTAACATGGTACTAAAA
* * * * * *
34487231 GGTTATGCCACGGTTACATATATTGGTTCAT-TAACATGGTACTAAAA
1 GGATATACCACGGTTACACATAATGATACATGTAACATGGTACTAAAA
*
34487278 GGATATACCACGGTTAAACAT
1 GGATATACCACGGTTACACAT
34487299 GTAACGTAGT
Statistics
Matches: 53, Mismatches: 15, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
47 29 0.55
48 24 0.45
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (48 bp):
GGATATACCACGGTTACACATAATGATACATGTAACATGGTACTAAAA
Found at i:34494520 original size:34 final size:34
Alignment explanation
Indices: 34494481--34494556 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
34494471 TTAGCCACTT
* *
34494481 TTTCAGTAATAGTCACAGTTTGGGCCTGAGCCCA
1 TTTCAGTAAGAGTCACAGTCTGGGCCTGAGCCCA
* * *
34494515 TTTCAGTAAGAGTGATAGTCTGGGCCTGAGCCCT
1 TTTCAGTAAGAGTCACAGTCTGGGCCTGAGCCCA
*
34494549 TTTTAGTA
1 TTTCAGTA
34494557 CAATATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (34 bp):
TTTCAGTAAGAGTCACAGTCTGGGCCTGAGCCCA
Found at i:34506777 original size:40 final size:39
Alignment explanation
Indices: 34506733--34506858 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
34506723 GGGACTCAAC
*
34506733 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * **
34506773 CCGGATTTAGTAACTCGCACGTATGCCGCCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
34506813 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
34506853 CCGGAT
1 CCGGAT
34506859 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
40 62 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:34514346 original size:40 final size:39
Alignment explanation
Indices: 34514302--34514427 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
34514292 GGGACTCAAC
*
34514302 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
34514342 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
34514382 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
34514422 CCGGAT
1 CCGGAT
34514428 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:34514386 original size:80 final size:80
Alignment explanation
Indices: 34514241--34514427 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
34514231 GGCTACACAT
* * *
34514241 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
34514305 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
34514321 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
34514384 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
34514402 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
34514428 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:34516563 original size:29 final size:29
Alignment explanation
Indices: 34516494--34516587 Score: 120
Period size: 28 Copynumber: 3.3 Consensus size: 29
34516484 AAGTCTATAT
* *
34516494 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
34516522 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
34516551 ACATTTGTGTGGCCCATTAGGCCCAAA-C
1 ACATTCATATGGCCCATTAGGCCCAAATC
34516579 ACATTCATA
1 ACATTCATA
34516588 GTCATGGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 28 0.51
29 27 0.49
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:34522579 original size:43 final size:43
Alignment explanation
Indices: 34522467--34522579 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
34522457 GATTTATGTA
* * * *
34522467 TAAGACCATGTCTGGGACATCGGCA-TCATATCTGATTTCGTG
1 TAAGACCATGTCTGGGACATCGGCATTGATATCTAATTACATG
**
34522509 TAAGACTC-TGTCTGGGACAAAGGCATTGATAT-TAAATTACATG
1 TAAGAC-CATGTCTGGGACATCGGCATTGATATCT-AATTACATG
* *
34522552 TAAGACCACGTCTGGGACATCGACATTG
1 TAAGACCATGTCTGGGACATCGGCATTG
34522580 TACTTGATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 23 0.40
43 34 0.60
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATCGGCATTGATATCTAATTACATG
Found at i:34524595 original size:32 final size:32
Alignment explanation
Indices: 34524555--34524620 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
34524545 AGCAATAATG
34524555 TACAAAAGGTTTGAAGATGGACTAAATGAAGA
1 TACAAAAGGTTTGAAGATGGACTAAATGAAGA
34524587 TACAAAAGGTTTGAAGATGGACTAAATGAAGA
1 TACAAAAGGTTTGAAGATGGACTAAATGAAGA
34524619 TA
1 TA
34524621 TCCGTTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (32 bp):
TACAAAAGGTTTGAAGATGGACTAAATGAAGA
Found at i:34536830 original size:21 final size:22
Alignment explanation
Indices: 34536788--34536830 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
34536778 TTACAAATGT
*
34536788 CATTTATCTAACAACAAGCATA
1 CATTTATCTAACAACAAACATA
* *
34536810 CATTT-TCTATCATCAAACATA
1 CATTTATCTAACAACAAACATA
34536831 AAAATAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (22 bp):
CATTTATCTAACAACAAACATA
Found at i:34543051 original size:19 final size:19
Alignment explanation
Indices: 34543027--34543066 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34543017 CTTATAGACA
*
34543027 TATTTTAAACTTCTTCACT
1 TATTTTAAACTTATTCACT
34543046 TATTTTAAACTTATTCACT
1 TATTTTAAACTTATTCACT
34543065 TA
1 TA
34543067 CTCACTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTAAACTTATTCACT
Found at i:34543084 original size:16 final size:16
Alignment explanation
Indices: 34543065--34543095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34543055 CTTATTCACT
34543065 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
34543081 TACTTACTTACTTAA
1 TACTCACTTACTTAA
34543096 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:34543101 original size:20 final size:20
Alignment explanation
Indices: 34543062--34543101 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34543052 AAACTTATTC
* *
34543062 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
34543082 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
34543102 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:34543436 original size:55 final size:53
Alignment explanation
Indices: 34543295--34543488 Score: 175
Period size: 55 Copynumber: 3.7 Consensus size: 53
34543285 ACCTTACCAT
* * * ** *
34543295 TGCCATGACTTGTCATGGTCTTACTTGGTATCC-T---TTCGAAACTTATCAT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTTATCAA
* *
34543344 TGCCATGTCTCGACATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA--AACTTATCAA
*
34543399 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAAACCTTA-CGAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA-CTTATC-AA
** * *
34543453 TTTTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
34543489 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
48 2 0.02
49 25 0.21
50 1 0.01
53 6 0.05
54 6 0.05
55 76 0.64
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTTATCAA
Found at i:34550612 original size:28 final size:28
Alignment explanation
Indices: 34550543--34550643 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34550533 GACAAGATTG
* * * *
34550543 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
34550573 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34550601 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
34550630 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34550644 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34550637 original size:29 final size:28
Alignment explanation
Indices: 34550572--34550643 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
34550562 AAAATTGTAC
*
34550572 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
34550600 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
34550629 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34550644 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Done.