Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 21 of 297
Found at i:7182767 original size:16 final size:16
Alignment explanation
Indices: 7182748--7182807 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
7182738 TATCAGGTTG
7182748 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
7182764 CCATGGTCT-TATATCAA
1 CCATGGTATCT-T-TCAA
7182781 GGTGCCATGGTATCTTTCAA
1 ----CCATGGTATCTTTCAA
7182801 CCATGGT
1 CCATGGT
7182808 CTTACACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 1 0.03
16 16 0.46
17 4 0.11
20 4 0.11
21 9 0.26
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:7182787 original size:37 final size:38
Alignment explanation
Indices: 7182737--7182977 Score: 292
Period size: 37 Copynumber: 6.0 Consensus size: 38
7182727 TACACATTTC
7182737 ATATC-AGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATATCAAGGTTGCCATGGTATCTTTCAACCATGGTCTT
7182774 ATATCAAGG-TGCCATGGTATCTTTCAACCATGGTCTT
1 ATATCAAGGTTGCCATGGTATCTTTCAACCATGGTCTT
*
7182811 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ----ATATC--A--AGGTTGCCATGGTATCTTTCAACCATGGTCTT
7182857 ATATCAAGG-TGCCATGGTATCTTTCAACCATGGTCTT
1 ATATCAAGGTTGCCATGGTATCTTTCAACCATGGTCTT
*
7182894 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ----ATATC--A--AGGTTGCCATGGTATCTTTCAACCATGGTCTT
7182940 ATATCAA-GTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATATCAAGGTTGCCATGGTATCTTTCAACCATGGTCTT
7182977 A
1 A
7182978 CACATTTCAT
Statistics
Matches: 181, Mismatches: 4, Indels: 38
0.81 0.02 0.17
Matches are distributed among these distances:
37 92 0.51
38 7 0.04
40 2 0.01
41 8 0.04
42 8 0.04
43 2 0.01
45 6 0.03
46 56 0.31
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (38 bp):
ATATCAAGGTTGCCATGGTATCTTTCAACCATGGTCTT
Found at i:7182839 original size:83 final size:83
Alignment explanation
Indices: 7182700--7182992 Score: 577
Period size: 83 Copynumber: 3.5 Consensus size: 83
7182690 CATGTCACGT
7182700 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
7182765 CATGGTCTTATATCAAGG
66 CATGGTCTTATATCAAGG
7182783 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
7182848 CATGGTCTTATATCAAGG
66 CATGGTCTTATATCAAGG
7182866 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
7182931 CATGGTCTTATATCAAGT
66 CATGGTCTTATATCAAGG
7182949 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7182993 AGAGCACACT
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 209 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (83 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTATATCAAGG
Found at i:7182841 original size:46 final size:46
Alignment explanation
Indices: 7182774--7182992 Score: 278
Period size: 46 Copynumber: 5.2 Consensus size: 46
7182764 CCATGGTCTT
7182774 ATATCAAGG-TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 ATATC-AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
7182820 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT----ATATC
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
7182862 --A--AGG-TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
7182903 ATATCAGGTTGCCATGGTATCTTTCAACCATGG---T---C--TT-
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
7182940 ATATCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
7182986 ATATCAG
1 ATATCAG
7182993 AGAGCACACT
Statistics
Matches: 150, Mismatches: 4, Indels: 38
0.78 0.02 0.20
Matches are distributed among these distances:
37 60 0.40
38 5 0.03
40 3 0.02
41 4 0.03
42 4 0.03
43 3 0.02
45 8 0.05
46 63 0.42
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (46 bp):
ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
Found at i:7182850 original size:16 final size:16
Alignment explanation
Indices: 7182831--7182890 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
7182821 TATCAGGTTG
7182831 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
7182847 CCATGGTCT-TATATCAA
1 CCATGGTATCT-T-TCAA
7182864 GGTGCCATGGTATCTTTCAA
1 ----CCATGGTATCTTTCAA
7182884 CCATGGT
1 CCATGGT
7182891 CTTACACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 1 0.03
16 16 0.46
17 4 0.11
20 4 0.11
21 9 0.26
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:7182933 original size:16 final size:16
Alignment explanation
Indices: 7182914--7182973 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
7182904 TATCAGGTTG
7182914 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
7182930 CCATGGTCT-TATATCAA
1 CCATGGTATCT-T-TCAA
7182947 GTTGCCATGGTATCTTTCAA
1 ----CCATGGTATCTTTCAA
7182967 CCATGGT
1 CCATGGT
7182974 CTTACACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 1 0.03
16 16 0.46
17 4 0.11
20 4 0.11
21 9 0.26
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:7182937 original size:166 final size:171
Alignment explanation
Indices: 7182608--7182992 Score: 645
Period size: 166 Copynumber: 2.3 Consensus size: 171
7182598 CATGTCACGT
** *
7182608 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAGGTTACCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGGTATCTTTCAAC
*
7182673 CATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTATTCA-TTCA--T-ACGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
7182738 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATATCAAGG
127 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATATCAAGG
*
7182783 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGGTATCTTTCAAC
7182848 CATGGTCTTA-T-A-TCA-A-GGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
66 CATGGTCTTATTCATTCATACGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
*
7182908 AGGTTGCCATGGTATCTTTCAACCATGGTCTTATATCAAGT
131 AGGTTGCCATGGTATCTTTCAACCATGGTCTTATATCAAGG
7182949 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7182993 AGAGCACACT
Statistics
Matches: 204, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
166 127 0.62
167 1 0.00
171 3 0.01
173 1 0.00
174 1 0.00
175 71 0.35
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (171 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGGTATCTTTCAAC
CATGGTCTTATTCATTCATACGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
AGGTTGCCATGGTATCTTTCAACCATGGTCTTATATCAAGG
Found at i:7185087 original size:16 final size:16
Alignment explanation
Indices: 7185068--7185106 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7185058 AATTTTTCCC
*
7185068 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
7185084 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
7185100 TCTTTCC
1 TTTTTCC
7185107 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:7185166 original size:16 final size:17
Alignment explanation
Indices: 7185135--7185174 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7185125 TCATCCTTTC
7185135 TTTCTTTTTCTATTCTT
1 TTTCTTTTTCTATTCTT
*
7185152 TTTCTTTTT-TTTTCTT
1 TTTCTTTTTCTATTCTT
*
7185168 TTACTTT
1 TTTCTTT
7185175 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTCTTTTTCTATTCTT
Found at i:7185169 original size:10 final size:10
Alignment explanation
Indices: 7185131--7185168 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
7185121 CGTTTCATCC
7185131 TTTCTTTCTT
1 TTTCTTTCTT
7185141 TTTCTATTCTT
1 TTTCT-TTCTT
*
7185152 TTTCTTTTTT
1 TTTCTTTCTT
7185162 TTTCTTT
1 TTTCTTT
7185169 TACTTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:7186742 original size:42 final size:42
Alignment explanation
Indices: 7186695--7186814 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 42
7186685 TAACATGTCA
* *
7186695 ATGCCATATCCCAGATATGGCCTTACATGTAA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
7186737 ATGCCAATAGCCCAAATATGATCTTACACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
7186780 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
7186815 TAATAACCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:7203862 original size:23 final size:24
Alignment explanation
Indices: 7203801--7203863 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
7203791 TGTGCAAGTG
* *
7203801 AGTGGCACTTCAGTGTAAAGTGAT
1 AGTGGCACTTCAGTGCAAAGTAAT
* * * *
7203825 A-TTGCACATCTGTGCGAAG-AAT
1 AGTGGCACTTCAGTGCAAAGTAAT
7203847 AGTGGCACTTCAGTGCA
1 AGTGGCACTTCAGTGCA
7203864 TCTTATCGAT
Statistics
Matches: 28, Mismatches: 10, Indels: 3
0.68 0.24 0.07
Matches are distributed among these distances:
22 3 0.11
23 24 0.86
24 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (24 bp):
AGTGGCACTTCAGTGCAAAGTAAT
Found at i:7205343 original size:20 final size:20
Alignment explanation
Indices: 7205315--7205361 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7205305 GGGAAACAAG
*
7205315 TTATATTAGCACAAATTGAA
1 TTATTTTAGCACAAATTGAA
*
7205335 TTATTTTAGCACAAATTGGA
1 TTATTTTAGCACAAATTGAA
7205355 TT-TTTTA
1 TTATTTTA
7205362 TTCGTTGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (20 bp):
TTATTTTAGCACAAATTGAA
Found at i:7216621 original size:30 final size:30
Alignment explanation
Indices: 7216557--7216622 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
7216547 ATTAAATAAA
* *
7216557 AAATTTT-AAATAATTCAGTAACTTAAATG
1 AAATTTTCGAATAATTCAATAACTTAAATG
* *
7216586 AAATTTTCGAATAATTTAATAA-TTAAATT
1 AAATTTTCGAATAATTCAATAACTTAAATG
7216615 ATAATTTT
1 A-AATTTT
7216623 TTTTAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
AAATTTTCGAATAATTCAATAACTTAAATG
Found at i:7217977 original size:23 final size:23
Alignment explanation
Indices: 7217947--7217990 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
7217937 TAGGCATGAT
*
7217947 ATATATTAACACATTTTATACAC
1 ATATATTAACACACTTTATACAC
7217970 ATATATTAACACACTTTATAC
1 ATATATTAACACACTTTATAC
7217991 TTATTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATATTAACACACTTTATACAC
Found at i:7221255 original size:23 final size:23
Alignment explanation
Indices: 7221229--7221275 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
7221219 TCCCCTTTGG
7221229 TCTCGTGTAGGAAAACTCCGAGA
1 TCTCGTGTAGGAAAACTCCGAGA
*
7221252 TCTCGTGTAGGGAAACTCCGAGA
1 TCTCGTGTAGGAAAACTCCGAGA
7221275 T
1 T
7221276 GGGCGAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (23 bp):
TCTCGTGTAGGAAAACTCCGAGA
Found at i:7225272 original size:7 final size:7
Alignment explanation
Indices: 7225257--7225292 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
7225247 AATTGTGTAT
*
7225257 AGTTTAA
1 AGTTCAA
7225264 AGTTCAA
1 AGTTCAA
7225271 AGTTCAA
1 AGTTCAA
7225278 AGTTCAA
1 AGTTCAA
*
7225285 ATTTCAA
1 AGTTCAA
7225292 A
1 A
7225293 AATAAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (7 bp):
AGTTCAA
Found at i:7229108 original size:18 final size:18
Alignment explanation
Indices: 7229074--7229134 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
7229064 AAACGTTAAC
7229074 TATTATTCATAAATTAAAT
1 TATT-TTCATAAATTAAAT
* **
7229093 TATTTTCTTATTTTAAAT
1 TATTTTCATAAATTAAAT
*
7229111 GTTTTTTCATAAATTAAAT
1 -TATTTTCATAAATTAAAT
7229130 TATTT
1 TATTT
7229135 AGATATTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTCATAAATTAAAT
Found at i:7229151 original size:35 final size:37
Alignment explanation
Indices: 7229079--7229153 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 37
7229069 TTAACTATTA
** *
7229079 TTCATAAATTAAATTATTTTCTTATTTTAAATGTTTT
1 TTCATAAATTAAATTATTTTCAGATATTAAATGTTTT
7229116 TTCATAAATTAAATTA-TTT-AGATATTAAATGTTTT
1 TTCATAAATTAAATTATTTTCAGATATTAAATGTTTT
7229151 TTC
1 TTC
7229154 TTATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 16 0.46
36 3 0.09
37 16 0.46
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (37 bp):
TTCATAAATTAAATTATTTTCAGATATTAAATGTTTT
Found at i:7230939 original size:30 final size:30
Alignment explanation
Indices: 7230903--7230963 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
7230893 AATTATTAGG
7230903 ACCAACAGACGTCAAATGCCCAAAATGAAT
1 ACCAACAGACGTCAAATGCCCAAAATGAAT
7230933 ACCAACAGACGTCAAATGCCCAAAATGAAT
1 ACCAACAGACGTCAAATGCCCAAAATGAAT
7230963 A
1 A
7230964 TGTTACACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (30 bp):
ACCAACAGACGTCAAATGCCCAAAATGAAT
Found at i:7231026 original size:1 final size:1
Alignment explanation
Indices: 7231020--7231044 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7231010 GGTAAGAAGC
7231020 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
7231045 CAACATACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7238691 original size:15 final size:15
Alignment explanation
Indices: 7238671--7238702 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7238661 AGTTAGATCC
7238671 ATAGAATTATATTTG
1 ATAGAATTATATTTG
7238686 ATAGAATTATATTTG
1 ATAGAATTATATTTG
7238701 AT
1 AT
7238703 TATAGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
ATAGAATTATATTTG
Found at i:7242631 original size:32 final size:30
Alignment explanation
Indices: 7242594--7242675 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
7242584 ATTATTTAAT
*
7242594 TAATAAATATCT-TTTAACTTAATAATAATAAG
1 TAATAAATATCTATTT-ACTT-A-AATAAAAAG
7242626 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
7242656 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
7242676 AATTGTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 11 0.24
31 11 0.24
32 20 0.44
33 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:7252099 original size:24 final size:24
Alignment explanation
Indices: 7252068--7252125 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
7252058 ATTGACATTT
7252068 ATGT-TTAAATCTCTGAATTAAAG
1 ATGTCTTAAATCTCTGAATTAAAG
*
7252091 ATGTCTTAAATCTTTGAATTAAAG
1 ATGTCTTAAATCTCTGAATTAAAG
*
7252115 ATGTCATAAAT
1 ATGTCTTAAAT
7252126 GTTATAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (24 bp):
ATGTCTTAAATCTCTGAATTAAAG
Found at i:7254863 original size:46 final size:45
Alignment explanation
Indices: 7254810--7255074 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 45
7254800 TGTGTGTGCT
* *
7254810 AGTGTAAGACATGTTTAGGACATGCATCGGCCACATTATTAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACA-AATTAGAGCC
* ** *
7254856 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCA-CAA-ATTAGAGCC
* *
7254904 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATGT-GAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-AAAT-TAGAGCC
*** * * *
7254950 AGTGTAAGACATGTCTAGGACATGCATCGGCGGTGAGA-T-GTGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGC-CACAAATTAGAGCC
* * *
7254994 AGTGTAAGACATGTCTGGGACACGCATCGG-CACAGATATGTAAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACA-A-AT-T-AGAGCC
*
7255042 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
7255075 ATTATATCCT
Statistics
Matches: 176, Mismatches: 26, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
44 33 0.19
46 54 0.31
47 32 0.18
48 36 0.20
49 13 0.07
50 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACAAATTAGAGCC
Found at i:7256869 original size:19 final size:19
Alignment explanation
Indices: 7256845--7256884 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7256835 GGACACAAGC
7256845 GTCCCTAGCACACGGGCGT
1 GTCCCTAGCACACGGGCGT
7256864 GTCCCTAGCACACGGGCGT
1 GTCCCTAGCACACGGGCGT
7256883 GT
1 GT
7256885 GTTCTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.35, G:0.33, T:0.17
Consensus pattern (19 bp):
GTCCCTAGCACACGGGCGT
Found at i:7261507 original size:22 final size:22
Alignment explanation
Indices: 7261487--7261531 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
7261477 TAAGAAAATT
7261487 AAATAAAAGAAAAATAAAAATAA
1 AAATAAAA-AAAAATAAAAATAA
*
7261510 AAATAAAAAGAAAT-AAAATAA
1 AAATAAAAAAAAATAAAAATAA
7261531 A
1 A
7261532 TAGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (22 bp):
AAATAAAAAAAAATAAAAATAA
Found at i:7261511 original size:12 final size:12
Alignment explanation
Indices: 7261487--7261522 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7261477 TAAGAAAATT
7261487 AAAT-AAAAGAA
1 AAATAAAAAGAA
*
7261498 AAATAAAAATAA
1 AAATAAAAAGAA
7261510 AAATAAAAAGAA
1 AAATAAAAAGAA
7261522 A
1 A
7261523 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:7265578 original size:49 final size:49
Alignment explanation
Indices: 7265506--7265605 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
7265496 TCTAATTAAA
7265506 ACCCCTATCGTCGCATTAACTCGATCTATGGATCCCCTTATTAGATTTG
1 ACCCCTATCGTCGCATTAACTCGATCTATGGATCCCCTTATTAGATTTG
*
7265555 ACCCCTATTGTCGCATTAACTCGATCTATGGATCCCCTTATTAGATTTG
1 ACCCCTATCGTCGCATTAACTCGATCTATGGATCCCCTTATTAGATTTG
7265604 AC
1 AC
7265606 TCTAATCCGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (49 bp):
ACCCCTATCGTCGCATTAACTCGATCTATGGATCCCCTTATTAGATTTG
Found at i:7266246 original size:30 final size:30
Alignment explanation
Indices: 7266211--7266268 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
7266201 CACGGCCATG
*
7266211 ACACACGGGCATGTG-GTCTACCCGTGTGTC
1 ACACACGGGCATGTGAATC-ACCCGTGTGTC
*
7266241 ACACACGGGCCTGTGAATCACCCGTGTG
1 ACACACGGGCATGTGAATCACCCGTGTG
7266269 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGAATCACCCGTGTGTC
Found at i:7266943 original size:6 final size:6
Alignment explanation
Indices: 7266932--7266973 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
7266922 AGTCGTTACA
* *
7266932 ATCTTC ATCTTC ATCTCTA ATGTT- ATCTTC ATCTTC ATCTTC
1 ATCTTC ATCTTC ATCT-TC ATCTTC ATCTTC ATCTTC ATCTTC
7266974 GGTGTTTGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.50
Consensus pattern (6 bp):
ATCTTC
Found at i:7283112 original size:13 final size:14
Alignment explanation
Indices: 7283081--7283115 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
7283071 AAAATAACCT
7283081 TTTAAAATATGAAA
1 TTTAAAATATGAAA
*
7283095 TTTAAAATAT-ATA
1 TTTAAAATATGAAA
7283108 TTTAAAAT
1 TTTAAAAT
7283116 TTTTTGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
TTTAAAATATGAAA
Found at i:7284933 original size:16 final size:16
Alignment explanation
Indices: 7284914--7284960 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
7284904 GTGTTGAATT
7284914 AGATGCATGTTAAACC
1 AGATGCATGTTAAACC
7284930 AGATGCATGTTAAACC
1 AGATGCATGTTAAACC
7284946 AGATGCATGTTAAAC
1 AGATGCATGTTAAAC
7284961 ATGTCTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (16 bp):
AGATGCATGTTAAACC
Found at i:7284993 original size:38 final size:38
Alignment explanation
Indices: 7284951--7285048 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
7284941 AAACCAGATG
* *
7284951 CATGTTAAACATGTCTATTGTTACT-GTTGAATTGAATA
1 CATGTTAAGCATGTCTATTGTTA-TAGTTGAACTGAATA
* *
7284989 CATGTTAAGCATGCCTACTT-CTATAGTTGAACTGAATA
1 CATGTTAAGCATGTCTA-TTGTTATAGTTGAACTGAATA
*
7285027 CATGTTAAGCACGTCTATTGTT
1 CATGTTAAGCATGTCTATTGTT
7285049 TTTGTATTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 3 0.06
38 45 0.90
39 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (38 bp):
CATGTTAAGCATGTCTATTGTTATAGTTGAACTGAATA
Found at i:7291810 original size:37 final size:37
Alignment explanation
Indices: 7291751--7291852 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
7291741 AGCTCAGACG
* *
7291751 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
7291788 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
7291825 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
7291853 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:7292096 original size:49 final size:49
Alignment explanation
Indices: 7291971--7292873 Score: 1626
Period size: 49 Copynumber: 18.6 Consensus size: 49
7291961 CCCTTCGGGA
* * * * *
7291971 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7292018 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292065 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292114 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292163 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292212 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292261 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292310 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292359 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292408 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292457 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292506 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292555 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292604 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7292702 CTTAT-ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCA-CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7292751 CTTATCA-A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7292798 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7292847 CTTATCAC--ATATATACACTTTCTCATT
1 CTTATCACATATATATACACTTTCACATT
7292874 TATTCAAATA
Statistics
Matches: 833, Mismatches: 15, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 106 0.13
48 3 0.00
49 722 0.87
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:7301406 original size:40 final size:40
Alignment explanation
Indices: 7301328--7301551 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
7301318 ACCCAAGTAT
* * *
7301328 CTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
7301367 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
7301407 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
7301447 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
7301490 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
7301530 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
7301552 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.07
40 115 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:7301524 original size:83 final size:80
Alignment explanation
Indices: 7301328--7301551 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 80
7301318 ACCCAAGTAT
* * * * *
7301328 CTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
7301392 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
7301407 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
7301471 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
7301490 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
7301552 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 49 0.39
83 65 0.52
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:7308832 original size:67 final size:67
Alignment explanation
Indices: 7308761--7308889 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 67
7308751 TCTCTTTCTT
* * ** *
7308761 TTTTTCAATTTTCTTTTCTTGATCAAATTCTTTTTCTTTTTCGATTTCTTTTTTCTTTTTCTTTC
1 TTTTTCAATTTTCTTTTCTTAATCAAAATCTTTTTCTTTTTAAATTTATTTTTTCTTTTTCTTTC
7308826 CC
66 CC
*
7308828 TTTTTTAATTTTCTTTTCTTAATCAAAATCTTTTTCTTTTTAAATTTATTTTTTCTTTTTCT
1 TTTTTCAATTTTCTTTTCTTAATCAAAATCTTTTTCTTTTTAAATTTATTTTTTCTTTTTCT
7308890 CATTCTCTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.15, C:0.16, G:0.02, T:0.68
Consensus pattern (67 bp):
TTTTTCAATTTTCTTTTCTTAATCAAAATCTTTTTCTTTTTAAATTTATTTTTTCTTTTTCTTTC
CC
Found at i:7308833 original size:19 final size:17
Alignment explanation
Indices: 7308791--7308825 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
7308781 GATCAAATTC
7308791 TTTTTCTTTTTCGATTTCT
1 TTTTTCTTTTTC--TTTCT
7308810 TTTTTCTTTTTCTTTC
1 TTTTTCTTTTTCTTTC
7308826 CCTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
19 12 0.75
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTCT
Found at i:7308952 original size:18 final size:17
Alignment explanation
Indices: 7308916--7308954 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7308906 TTTTTTCACA
*
7308916 CTTTTTTTCCTTCATTT
1 CTTTTTTTCCTTCAATT
*
7308933 CTTTTTTTCTTTCAAATT
1 CTTTTTTTCCTTC-AATT
7308951 CTTT
1 CTTT
7308955 CTCACATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTTTTTTCCTTCAATT
Found at i:7316842 original size:17 final size:17
Alignment explanation
Indices: 7316798--7316842 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
7316788 GATTTGTACA
*
7316798 AAGATCTTCTATTTTGAT
1 AAGAT-TTCTATTTTCAT
7316816 AAGA-TTCTATTTTCAT
1 AAGATTTCTATTTTCAT
*
7316832 GAGATTTCTAT
1 AAGATTTCTAT
7316843 GAAGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.58
17 6 0.25
18 4 0.17
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (17 bp):
AAGATTTCTATTTTCAT
Found at i:7321756 original size:13 final size:13
Alignment explanation
Indices: 7321734--7321764 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7321724 TGACTTATGC
*
7321734 CACACGTCCAAGT
1 CACACATCCAAGT
7321747 CACACATCCAAGT
1 CACACATCCAAGT
7321760 CACAC
1 CACAC
7321765 GCCCGTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.42, G:0.10, T:0.13
Consensus pattern (13 bp):
CACACATCCAAGT
Found at i:7325689 original size:17 final size:18
Alignment explanation
Indices: 7325648--7325690 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7325638 TGTATTTGCT
7325648 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
7325666 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
7325683 TATTATAT
1 TATTATAT
7325691 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:7356542 original size:20 final size:18
Alignment explanation
Indices: 7356508--7356544 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
7356498 GCAACTCATA
7356508 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
7356526 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
7356545 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:7357311 original size:55 final size:55
Alignment explanation
Indices: 7357246--7357356 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
7357236 TACATCACCC
* * *
7357246 CCAATAGTGTTTAACTTTTCAGGTAAACCTTAAAATTAGGATCGGACTCGGCATT
1 CCAATAGTGTTTAACTTTTCAAGTAAACCTTAAAATTAGGACCGAACTCGGCATT
*
7357301 CCAATAGTGTTTAACTTTTCAAGTAAACCTTAAAATTAGGACCGAATTCGGCATT
1 CCAATAGTGTTTAACTTTTCAAGTAAACCTTAAAATTAGGACCGAACTCGGCATT
7357356 C
1 C
7357357 GGAGAATCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (55 bp):
CCAATAGTGTTTAACTTTTCAAGTAAACCTTAAAATTAGGACCGAACTCGGCATT
Found at i:7361746 original size:55 final size:54
Alignment explanation
Indices: 7361660--7361906 Score: 233
Period size: 55 Copynumber: 4.6 Consensus size: 54
7361650 AGGAATGTGT
* * *
7361660 AGGATACCATGTAAGACCATACCAAGGCATGGCAATTGATAAGGTTTCTAACGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAA-GTTTCTAAGGCA
* * *
7361715 AGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTATTATAAGGTAA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAG-T-TTCTAAGG-CA
* * * * * *
7361771 AGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TACATATGGCA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGTTTC-TAAGGCA
* * *
7361823 AGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---A
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGTTTCTAAGGCA
* *
7361872 AGGATACCATGTAAGACCATGACAAGTCATGGCAA
1 AGGATACCATGTAAGACCATGCCAAGACATGGCAA
7361907 AGGTAAGGTA
Statistics
Matches: 160, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 33 0.21
52 6 0.04
53 36 0.22
54 12 0.08
55 69 0.43
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGTTTCTAAGGCA
Found at i:7361865 original size:108 final size:110
Alignment explanation
Indices: 7361666--7361866 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
7361656 GTGTAGGATA
*
7361666 CCATGTAAGACCATACCAAGGCATGGCAATTGATAAGGTTTCTAACGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGATAAGGTTACTAACGCAAGGATACCATGTAAGA
*
7361731 CCATGTCAAGACATGGCATTGATAAGTTATTATAAGGTAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTATTATAAGGTAAAGGTC
* * * **
7361776 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TACATATGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATACCAAGGCATGGCAATTGATAAGGTTAC-TAACGCAAGGATACCATGTAAG
* *
7361838 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
7361867 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.58
109 6 0.07
110 26 0.32
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATACCAAGGCATGGCAATTGATAAGGTTACTAACGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTATTATAAGGTAAAGGTC
Found at i:7362127 original size:16 final size:16
Alignment explanation
Indices: 7362106--7362136 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7362096 ATAAATTTGA
7362106 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
7362122 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
7362137 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:7372016 original size:31 final size:31
Alignment explanation
Indices: 7371965--7372044 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 31
7371955 TCAAACATGT
*
7371965 ACTGGGCC-ATAGCCCTTTTCATATTTCATAAC
1 ACTGGGCCGA-AG-CCTTTTCAAATTTCATAAC
**
7371997 ACTGGGCCGAAGCCTTTTCAAATTTCATATT
1 ACTGGGCCGAAGCCTTTTCAAATTTCATAAC
7372028 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
7372045 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 33 0.75
32 10 0.23
33 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCAAATTTCATAAC
Found at i:7372315 original size:48 final size:47
Alignment explanation
Indices: 7372257--7372356 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
7372247 GGCCTTGCCT
* * *
7372257 CTTTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCC
*
7372305 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
7372352 CTTTT
1 CTTTT
7372357 TCACTTCCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
47 25 0.52
48 23 0.48
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTAGGGCATAAGCC
Found at i:7372344 original size:23 final size:24
Alignment explanation
Indices: 7372257--7372356 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
7372247 GGCCTTGCCT
*
7372257 CTTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
7372281 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
7372305 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
7372329 C-TTTAATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
7372352 CTTTT
1 CTTTT
7372357 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 21 0.30
24 50 0.70
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:7372501 original size:25 final size:25
Alignment explanation
Indices: 7372469--7372516 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7372459 ATACATAAAC
* * *
7372469 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
7372494 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
7372517 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:7375187 original size:27 final size:26
Alignment explanation
Indices: 7375157--7375257 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 26
7375147 GACGATTTTT
*
7375157 CCCTTATGTGATAAAATGACCAAAATA
1 CCCTTATG-GGTAAAATGACCAAAATA
* *
7375184 CCCTTATAGGGTAAAATGATCGAAATA
1 CCCTTAT-GGGTAAAATGACCAAAATA
* * * *
7375211 CCCCTATAAGGTAGAATGACCGAAATA
1 CCCTTAT-GGGTAAAATGACCAAAATA
7375238 CCCTTATAGGGTAAAATGAC
1 CCCTTAT-GGGTAAAATGAC
7375258 TCTAATACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 62 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (26 bp):
CCCTTATGGGTAAAATGACCAAAATA
Found at i:7375264 original size:27 final size:28
Alignment explanation
Indices: 7375168--7375267 Score: 127
Period size: 27 Copynumber: 3.7 Consensus size: 28
7375158 CCTTATGTGA
*
7375168 TAAAATGAC-CAAAATACCCTTATAGGG
1 TAAAATGACTCGAAATACCCTTATAGGG
* *
7375195 TAAAATGA-TCGAAATACCCCTATAAGG
1 TAAAATGACTCGAAATACCCTTATAGGG
*
7375222 TAGAATGAC-CGAAATACCCTTATAGGG
1 TAAAATGACTCGAAATACCCTTATAGGG
*
7375249 TAAAATGACTC-TAATACCC
1 TAAAATGACTCGAAATACCC
7375268 CGGTACAGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
27 61 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (28 bp):
TAAAATGACTCGAAATACCCTTATAGGG
Found at i:7375283 original size:54 final size:54
Alignment explanation
Indices: 7375168--7375284 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
7375158 CCTTATGTGA
*
7375168 TAAAATGACCAAAATACCCTTATAGGGTAAAATGATCGAAATACCCCTATAAGG
1 TAAAATGACCAAAATACCCTTATAGGGTAAAATGATCGAAATACCCCGATAAGG
* * * *
7375222 TAGAATGACCGAAATACCCTTATAGGGTAAAATGACTC-TAATACCCCGGTACA-G
1 TAAAATGACCAAAATACCCTTATAGGGTAAAATGA-TCGAAATACCCCGATA-AGG
7375276 TAAAATGAC
1 TAAAATGAC
7375285 AGATTTGTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 52 0.95
55 3 0.05
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCTTATAGGGTAAAATGATCGAAATACCCCGATAAGG
Found at i:7375743 original size:35 final size:35
Alignment explanation
Indices: 7375674--7375772 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
7375664 TTGCACTGAT
* *
7375674 TACTATTACTGAAATGGGC-TAAAGCCCAGACTGC
1 TACTGTTACTGAAATGGGCTTAAGGCCCAGACTGC
* * *
7375708 TATTGTTATTGAAATGGGCTTAAGGCCCATACTGC
1 TACTGTTACTGAAATGGGCTTAAGGCCCAGACTGC
7375743 TACTGTTACTGATAA-GGGCTT-AGGCCCAGA
1 TACTGTTACTGA-AATGGGCTTAAGGCCCAGA
7375773 ATGTATTCGC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 24 0.44
35 29 0.53
36 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (35 bp):
TACTGTTACTGAAATGGGCTTAAGGCCCAGACTGC
Found at i:7376557 original size:46 final size:45
Alignment explanation
Indices: 7376341--7376557 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 45
7376331 ATTGTGAGCT
* * *
7376341 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAG-TCC
* * * * *
7376387 AGTGTAAGACCATGTCTAGGACACAGCATCGAC-ATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGCTA-CGAGATGAGT-CC
* * * *
7376435 AGTGTAAGACATGTTTGGGACATGCATTTGCCT-CGAGACGTAAGT-C
1 AGTGTAAGACATGTCTGGGACATGCA-TCGGCTACGAGA--TGAGTCC
* *
7376481 AGTGTAAAACATGTCTGGGACATGCATCGGCTACGAGATGTGT-C
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGTCC
7376525 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
7376558 ACAGATATGC
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 12 0.09
45 18 0.13
46 53 0.39
47 27 0.20
48 26 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGTCC
Found at i:7378221 original size:48 final size:48
Alignment explanation
Indices: 7378139--7378425 Score: 234
Period size: 48 Copynumber: 5.9 Consensus size: 48
7378129 ATACAACGGG
* * * * *
7378139 TATGTGAGCTAGTGTAA-AACCATGTTTGGAACATGACATCGGTATTGA
1 TATGAGAGCTAGTGTAAGAA-CATGTCTGGAACATGGCATTGGCATTGA
* * * *
7378187 TATGAAAGCTAGTGTAAGAACATGTCTGGGACATGGCATTGGCCTCGA
1 TATGAGAGCTAGTGTAAGAACATGTCTGGAACATGGCATTGGCATTGA
* * * * * * *
7378235 AATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATTGACATTGA
1 TATGAGAGCTAGTGTAAGAACATGTCTGGAACATGGCATTGGCATTGA
* * * * *
7378283 TAAGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGA
1 TATGAGAGCTAGTGTAAGAACATGTCTGGAACATGGCATTGGCATTGA
* * * * * * **
7378331 CATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATAGGCACCGATA
1 TATGAGAGCTAGTGTAAGAACATGTCTGGAACATGGCATTGGCATTG--A
* * * * *
7378381 TATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
1 TATGAGAGCTAGTGTAAGAACATGTCTGGAACATGGCATTGGCAT
7378426 CTTACCCTTT
Statistics
Matches: 190, Mismatches: 46, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
48 149 0.78
49 2 0.01
50 39 0.21
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGAACATGTCTGGAACATGGCATTGGCATTGA
Found at i:7378307 original size:96 final size:96
Alignment explanation
Indices: 7378140--7378419 Score: 389
Period size: 96 Copynumber: 2.9 Consensus size: 96
7378130 TACAACGGGT
* * * * * *
7378140 ATGTGAGCTAGTGTAAAACCATGTTTGGAACATGACATCGGTATTGATATGAAAGCTAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATAGGCATTGATAAGAGAGCTAGTGTAAG
*
7378205 AACATGTCTGGGACATGGCATTGGCCTCGAA
66 ACCATGTCTGGGACATGGCATTGGCCTCGAA
* * * *
7378236 ATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATTGACATTGATAAGAGAGCTAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATAGGCATTGATAAGAGAGCTAGTGTAAG
*
7378301 ACCATGTCTGGGACATGGCATTGGCCTCGAC
66 ACCATGTCTGGGACATGGCATTGGCCTCGAA
* ** *
7378332 ATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATAGGCACCGATATATGAGAGCCAGTGTA
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATAGGCATTGATA-A-GAGAGCTAGTGTA
*
7378397 AGACCATGTTTGGGACATGGCAT
64 AGACCATGTCTGGGACATGGCAT
7378420 CGGCATCTTA
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 127 0.78
97 1 0.01
98 34 0.21
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (96 bp):
ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATAGGCATTGATAAGAGAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATTGGCCTCGAA
Found at i:7380476 original size:21 final size:21
Alignment explanation
Indices: 7380451--7380506 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
7380441 CGGCCTCCAG
* * *
7380451 CACGGGCGTGTCCTAGGGTTA
1 CACGGGCGTGTCCCAAGGTCA
7380472 CACGGGCGTGTCCCAAGGTCA
1 CACGGGCGTGTCCCAAGGTCA
7380493 CACGGGCGTGTCCC
1 CACGGGCGTGTCCC
7380507 TTGGACCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (21 bp):
CACGGGCGTGTCCCAAGGTCA
Found at i:7380519 original size:22 final size:21
Alignment explanation
Indices: 7380451--7380525 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
7380441 CGGCCTCCAG
* * **
7380451 CACGGGCGTGTCCTAGGGTTA
1 CACGGGCGTGTCCCAAGGCCA
*
7380472 CACGGGCGTGTCCCAAGGTCA
1 CACGGGCGTGTCCCAAGGCCA
**
7380493 CACGGGCGTGTCCCTTGGACCA
1 CACGGGCGTGTCCCAAGG-CCA
*
7380515 CACGGGTGTGT
1 CACGGGCGTGT
7380526 GAGCCTTGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 34 0.74
22 12 0.26
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (21 bp):
CACGGGCGTGTCCCAAGGCCA
Found at i:7387106 original size:22 final size:23
Alignment explanation
Indices: 7387072--7387115 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7387062 TCTATCAAAA
7387072 ATTATCAAAATTAATAAAAATTT
1 ATTATCAAAATTAATAAAAATTT
*
7387095 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATAAAAATT
7387116 CAACATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATAAAAATTT
Found at i:7397849 original size:37 final size:38
Alignment explanation
Indices: 7397761--7397849 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
7397751 AACGGCTATG
*
7397761 ATTTGACAAAATCAGAATTTAACTTCTAAATGATTACG
1 ATTTGACAAAATCAGAATTTAACTTCTAAATGATTACA
7397799 ATTTGACAAAATCAGAATTTAACTTCTAAATG-TTACA
1 ATTTGACAAAATCAGAATTTAACTTCTAAATGATTACA
*
7397836 ATTTGACAGAATCA
1 ATTTGACAAAATCA
7397850 AAATCTGGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 17 0.35
38 32 0.65
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (38 bp):
ATTTGACAAAATCAGAATTTAACTTCTAAATGATTACA
Found at i:7398706 original size:26 final size:26
Alignment explanation
Indices: 7398617--7398754 Score: 125
Period size: 26 Copynumber: 5.3 Consensus size: 26
7398607 GAGTGGTTCC
*
7398617 GAGGACCCTTGAGTTTGAGATGGGTCG
1 GAGGACCCTTGAGTTTGAG-TTGGTCG
* ** *
7398644 GAGGTCCCTTGAGTTTGAACTGGTCA
1 GAGGACCCTTGAGTTTGAGTTGGTCG
* *
7398670 GA-GAGCTCTTGAGTTTGAGTTAGTCG
1 GAGGA-CCCTTGAGTTTGAGTTGGTCG
* * *
7398696 GAGGTCCCTTGAGTTTGAGTGGGTCC
1 GAGGACCCTTGAGTTTGAGTTGGTCG
* * *
7398722 AAGGAACCTTGAGTTTGAGTTGGCCG
1 GAGGACCCTTGAGTTTGAGTTGGTCG
*
7398748 GAAGACC
1 GAGGACC
7398755 ATGAGCAGAT
Statistics
Matches: 84, Mismatches: 25, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
25 1 0.01
26 65 0.77
27 18 0.21
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.28
Consensus pattern (26 bp):
GAGGACCCTTGAGTTTGAGTTGGTCG
Found at i:7398733 original size:52 final size:51
Alignment explanation
Indices: 7398605--7398742 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 51
7398595 CCTAGCTAGA
* * **
7398605 TTGAGTGGTTCCGAGGACCCTTGAGTTTGAGATGGGTCGGAGGTCCCTTGAGT
1 TTGAGTGGGTCC-AGGAACCTTGAGTTTGAG-TTAGTCGGAGGTCCCTTGAGT
* *
7398658 TTGAACT-GGT-CAGAGAGCTCTTGAGTTTGAGTTAGTCGGAGGTCCCTTGAGT
1 TTG-AGTGGGTCCAG-GAAC-CTTGAGTTTGAGTTAGTCGGAGGTCCCTTGAGT
7398710 TTGAGTGGGTCCAAGGAACCTTGAGTTTGAGTT
1 TTGAGTGGGTCC-AGGAACCTTGAGTTTGAGTT
7398743 GGCCGGAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
51 4 0.06
52 43 0.60
53 21 0.29
54 4 0.06
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (51 bp):
TTGAGTGGGTCCAGGAACCTTGAGTTTGAGTTAGTCGGAGGTCCCTTGAGT
Found at i:7400999 original size:28 final size:29
Alignment explanation
Indices: 7400919--7401022 Score: 106
Period size: 28 Copynumber: 3.7 Consensus size: 29
7400909 TCGATATTTT
* * *
7400919 GCACACTGAGTGCCAT-TCTCAATATTTC
1 GCACACTAAGTGCCATATTTCAATGTTTC
*
7400947 GCACACAAAGTGCCAT-TTTCAATGTTTC
1 GCACACTAAGTGCCATATTTCAATGTTTC
* * **
7400975 ACACACTAAGTGCCATATTT-GATGTCCC
1 GCACACTAAGTGCCATATTTCAATGTTTC
*
7401003 GCACACTAAGTGCCAAATTT
1 GCACACTAAGTGCCATATTT
7401023 AGCTGATATG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 61 0.95
29 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
GCACACTAAGTGCCATATTTCAATGTTTC
Found at i:7401144 original size:22 final size:22
Alignment explanation
Indices: 7401116--7401160 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7401106 TGCTTATTGC
7401116 ATACAAACTTACCTCGATCGTT
1 ATACAAACTTACCTCGATCGTT
7401138 ATACAAACTTACCTCGATCGTT
1 ATACAAACTTACCTCGATCGTT
7401160 A
1 A
7401161 AAACGACGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (22 bp):
ATACAAACTTACCTCGATCGTT
Found at i:7404230 original size:16 final size:16
Alignment explanation
Indices: 7404209--7404250 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7404199 AAGCTAGACC
7404209 ATTTATGACCGATCAA
1 ATTTATGACCGATCAA
*
7404225 ATTTAT-ATTCGATCAA
1 ATTTATGA-CCGATCAA
*
7404241 ATTTCTGACC
1 ATTTATGACC
7404251 AACTACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTTATGACCGATCAA
Found at i:7406931 original size:28 final size:27
Alignment explanation
Indices: 7406868--7407019 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
7406858 ATATTAAGTC
* * *
7406868 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
7406895 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
7406923 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
7406950 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
7406978 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
7407005 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7407020 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:7406952 original size:55 final size:55
Alignment explanation
Indices: 7406868--7407019 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
7406858 ATATTAAGTC
* * *
7406868 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
7406923 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
7406978 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
7407020 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:7412347 original size:15 final size:16
Alignment explanation
Indices: 7412318--7412347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7412308 CAAACATGCT
7412318 TTAACACACTATCAAA
1 TTAACACACTATCAAA
7412334 TTAACACA-TATCAA
1 TTAACACACTATCAA
7412348 TAAGGAACTA
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:0.23, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACACACTATCAAA
Found at i:7412817 original size:20 final size:21
Alignment explanation
Indices: 7412794--7412837 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7412784 ACCCTTTCAA
7412794 ATTTTC-TTAATTT-CATTTGC
1 ATTTTCATTAATTTCCA-TTGC
7412814 A-TTTCATTAATTTCCATTGC
1 ATTTTCATTAATTTCCATTGC
7412834 ATTT
1 ATTT
7412838 ACCTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTCATTAATTTCCATTGC
Found at i:7415926 original size:16 final size:17
Alignment explanation
Indices: 7415892--7415929 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
7415882 TCAAATCATA
7415892 ATAATTAACCAAATATT
1 ATAATTAACCAAATATT
7415909 ATAATT-ACCATAAT-TT
1 ATAATTAACCA-AATATT
7415925 ATAAT
1 ATAAT
7415930 AATGTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATTAACCAAATATT
Found at i:7419422 original size:33 final size:33
Alignment explanation
Indices: 7419374--7419477 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 33
7419364 TAGCCCTATA
* *
7419374 CAGTAACAGTGTAGGCCTAAACCCAATACAGTAT
1 CAGT-ACAGTATAGGCCTAAGCCCAATACAGTAT
* * *
7419408 CAGTACAGTCTAGGCCTTAGCCCTATACA--AT
1 CAGTACAGTATAGGCCTAAGCCCAATACAGTAT
*
7419439 -A--ACAGTATGGGCCTAAGCCCAATACAGTAT
1 CAGTACAGTATAGGCCTAAGCCCAATACAGTAT
7419469 CAGTACAGT
1 CAGTACAGT
7419478 GTAATGCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
28 21 0.37
30 3 0.05
31 3 0.05
33 26 0.46
34 4 0.07
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (33 bp):
CAGTACAGTATAGGCCTAAGCCCAATACAGTAT
Found at i:7419426 original size:61 final size:61
Alignment explanation
Indices: 7419353--7419477 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 61
7419343 GGATCGGGAT
* *
7419353 AGTCTGGACCTTAGCCCTATACAGTAACAGTGTAGGCCTAAACCCAATACAGTATCAGTAC
1 AGTCTGGACCTTAGCCCTATACAATAACAGTATAGGCCTAAACCCAATACAGTATCAGTAC
* *
7419414 AGTCTAGG-CCTTAGCCCTATACAATAACAGTATGGGCCTAAGCCCAATACAGTATCAGTAC
1 AGTCT-GGACCTTAGCCCTATACAATAACAGTATAGGCCTAAACCCAATACAGTATCAGTAC
7419475 AGT
1 AGT
7419478 GTAATGCAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (61 bp):
AGTCTGGACCTTAGCCCTATACAATAACAGTATAGGCCTAAACCCAATACAGTATCAGTAC
Found at i:7419473 original size:28 final size:28
Alignment explanation
Indices: 7419365--7419473 Score: 92
Period size: 28 Copynumber: 3.7 Consensus size: 28
7419355 TCTGGACCTT
* *
7419365 AGCCCTATACAGTAACAGTGTAGGCCTA
1 AGCCCAATACAGTAACAGTATAGGCCTA
* * *
7419393 AACCCAATACAGTATCAGTACAGTCTAGGCCTT
1 AGCCCAATACAG--T-A--ACAGTATAGGCCTA
* * *
7419426 AGCCCTATACAATAACAGTATGGGCCTA
1 AGCCCAATACAGTAACAGTATAGGCCTA
*
7419454 AGCCCAATACAGTATCAGTA
1 AGCCCAATACAGTAACAGTA
7419474 CAGTGTAATG
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
28 38 0.60
30 2 0.03
31 2 0.03
33 21 0.33
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (28 bp):
AGCCCAATACAGTAACAGTATAGGCCTA
Found at i:7421239 original size:29 final size:29
Alignment explanation
Indices: 7421170--7421288 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 29
7421160 GTGAGCATGA
* * *
7421170 ATAT-AATATGATTTGGGTCTAATGAGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
7421198 ATATGAA-ATTGAATTAGGCCTAATGGGCC
1 ATATGAATA-TGAATTGGGCCTAATGGGCC
* *
7421227 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
7421256 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
7421284 ATATG
1 ATATG
7421289 CGTGTATGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
28 23 0.32
29 49 0.67
30 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:7422595 original size:27 final size:27
Alignment explanation
Indices: 7422565--7422682 Score: 182
Period size: 27 Copynumber: 4.4 Consensus size: 27
7422555 AGCATAATCT
* *
7422565 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
7422592 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
**
7422619 TCATTTTACCCTACAGGGGCATTACAA
1 TCATTTTACCCTACAGGGGCATTACGG
*
7422646 TCATTTTACCCTACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
7422673 TCATTTTACC
1 TCATTTTACC
7422683 TATTTTGGGG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:7426552 original size:47 final size:47
Alignment explanation
Indices: 7426483--7426605 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
7426473 GCCCCTAAGT
*
7426483 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCCGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
7426530 GAACTCCGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCCGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
7426577 GAACTCCGACTCAACTCAACGAGTTCGGA
1 GAACTCCGACTCAACTCAACGAGTTCGGA
7426606 CATTCGCATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (47 bp):
GAACTCCGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7427108 original size:30 final size:30
Alignment explanation
Indices: 7427074--7427133 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7427064 ATTTAATACG
7427074 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* ***
7427104 AACTTTTGTGTAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
7427134 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:7427643 original size:50 final size:50
Alignment explanation
Indices: 7427589--7427688 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
7427579 TGTTTTTAAT
7427589 TCATTTTAATAACTAAATGACCAAAATACCCTTACTACTAAACTTTCCAA
1 TCATTTTAATAACTAAATGACCAAAATACCCTTACTACTAAACTTTCCAA
*
7427639 TCATTTTAATTACTAAATGACCAAAATACCCTTACTACTAAACTTTCCAA
1 TCATTTTAATAACTAAATGACCAAAATACCCTTACTACTAAACTTTCCAA
7427689 AAATTCCATC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (50 bp):
TCATTTTAATAACTAAATGACCAAAATACCCTTACTACTAAACTTTCCAA
Found at i:7427677 original size:25 final size:25
Alignment explanation
Indices: 7427600--7427680 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
7427590 CATTTTAATA
7427600 ACTAAATGACCAAAATACCCTTACT
1 ACTAAATGACCAAAATACCCTTACT
** ** *
7427625 ACTAAACTTTCC--AAT-CATTTTAATT
1 ACTAAA-TGACCAAAATAC-CCTT-ACT
7427650 ACTAAATGACCAAAATACCCTTACT
1 ACTAAATGACCAAAATACCCTTACT
7427675 ACTAAA
1 ACTAAA
7427681 CTTTCCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 1 0.03
24 8 0.20
25 22 0.55
26 8 0.20
27 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (25 bp):
ACTAAATGACCAAAATACCCTTACT
Found at i:7434250 original size:46 final size:43
Alignment explanation
Indices: 7434107--7434242 Score: 114
Period size: 47 Copynumber: 3.0 Consensus size: 43
7434097 CCCGCCCCTA
7434107 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * * * *
7434154 CA-CGAACTCCGACTCAACTCAACGAGTTTGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
7434200 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
7434243 CCTAGTGACA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
44 9 0.13
45 1 0.01
46 27 0.38
47 28 0.39
48 1 0.01
49 4 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:7434688 original size:30 final size:30
Alignment explanation
Indices: 7434654--7434713 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7434644 ATTTAATACG
7434654 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* ***
7434684 AACTTTTGTGTAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
7434714 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:7436806 original size:30 final size:31
Alignment explanation
Indices: 7436772--7436868 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
7436762 AGCTCACTCC
*
7436772 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
7436802 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
7436832 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
7436862 TAGCTCA
1 TAGCTCA
7436869 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:7443566 original size:69 final size:70
Alignment explanation
Indices: 7443448--7443590 Score: 252
Period size: 69 Copynumber: 2.1 Consensus size: 70
7443438 TACCAAGCCC
7443448 CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCTGTTGACTTCCAAC
1 CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCTGTTGACTTCCAAC
7443513 CAGAG
66 CAGAG
* *
7443518 CAAA-TGTAAAAATACCAAAAATCAATAGTAGGATAGTGTGATGTGATCTCTGTTGACTTCCAAC
1 CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCTGTTGACTTCCAAC
*
7443582 CCGAG
66 CAGAG
7443587 CAAA
1 CAAA
7443591 CTTCTGAAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 66 0.94
70 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (70 bp):
CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCTGTTGACTTCCAAC
CAGAG
Found at i:7444147 original size:32 final size:31
Alignment explanation
Indices: 7444107--7444187 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
7444097 TCAATTGAAT
*
7444107 TTTCGTACATACATGTACTATATTGTACAAA
1 TTTCGTACATACATGTACCATATTGTACAAA
* *
7444138 TTTCTGTACATACCTGTACCATATTGTACCAAT
1 TTTC-GTACATACATGTACCATATTGTA-CAAA
* *
7444171 TTTCGTAGATACCTGTA
1 TTTCGTACATACATGTA
7444188 TCATCTCGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 4 0.09
32 33 0.75
33 7 0.16
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (31 bp):
TTTCGTACATACATGTACCATATTGTACAAA
Found at i:7444293 original size:28 final size:28
Alignment explanation
Indices: 7444250--7444378 Score: 111
Period size: 28 Copynumber: 4.6 Consensus size: 28
7444240 ATTCAATGTA
7444250 TCGCACACT-AGATGCCATACTCGATACCT
1 TCGCACACTAAG-TGCCATACTCGATA-CT
* * * **
7444279 T-GCACACTAAGTGCCGTTCTGGATGTT
1 TCGCACACTAAGTGCCATACTCGATACT
* *
7444306 TCGCACACTAAGTGCCATCCTCGTTACT
1 TCGCACACTAAGTGCCATACTCGATACT
* *
7444334 TCGTACACTAAGTGCCAT-CCCTGATACT
1 TCGCACACTAAGTGCCATACTC-GATACT
**
7444362 TCGCACGTTAAGTGCCA
1 TCGCACACTAAGTGCCA
7444379 CATATAATTA
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
27 4 0.05
28 73 0.91
29 3 0.04
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCGATACT
Found at i:7449634 original size:12 final size:12
Alignment explanation
Indices: 7449617--7449647 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
7449607 GACTCGAGTC
7449617 TTTTGTTTAGCA
1 TTTTGTTTAGCA
7449629 TTTTGTTTAGCA
1 TTTTGTTTAGCA
7449641 TTTTGTT
1 TTTTGTT
7449648 AAGTAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.16, T:0.65
Consensus pattern (12 bp):
TTTTGTTTAGCA
Found at i:7459290 original size:42 final size:43
Alignment explanation
Indices: 7459176--7459291 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
7459166 AAAGCTCGTA
* *
7459176 CAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCC-ACTGTCCCAGACATGGTCTTACATGAAATCAAATAT
* * *
7459219 CAATGCCACTGTCCCAAACAGGGTCTTACATGAAATCATATA-
1 CAATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAATAT
* * *
7459261 CGATGCTGA-TGTCCCAGACATGGTTTTACAT
1 CAATGC-CACTGTCCCAGACATGGTCTTACAT
7459292 ATAAATCTCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 26 0.43
43 35 0.57
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAATAT
Found at i:7468478 original size:30 final size:30
Alignment explanation
Indices: 7468442--7468538 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
7468432 AGCTCACTCC
7468442 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
7468472 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
7468502 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
7468532 TAGCTCA
1 TAGCTCA
7468539 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:7471077 original size:15 final size:15
Alignment explanation
Indices: 7471057--7471086 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7471047 TCATCACTTA
7471057 TACTTAATGAATACC
1 TACTTAATGAATACC
*
7471072 TACTTAATGATTACC
1 TACTTAATGAATACC
7471087 AAATACAAAG
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:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (15 bp):
TACTTAATGAATACC
Found at i:7484030 original size:30 final size:29
Alignment explanation
Indices: 7483984--7484050 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 29
7483974 CCTCAAGTAA
*
7483984 CCAAAGCCAGTTAAATCGCACACTTAGTG
1 CCAAAGCTAGTTAAATCGCACACTTAGTG
*
7484013 CTAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACTTAGTG
7484043 CCAAAGCT
1 CCAAAGCT
7484051 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 8 0.24
30 26 0.76
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACTTAGTG
Found at i:7489204 original size:49 final size:49
Alignment explanation
Indices: 7489049--7489579 Score: 870
Period size: 49 Copynumber: 11.1 Consensus size: 49
7489039 GAAATGATAG
*
7489049 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
7489096 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
7489143 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
7489192 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
7489241 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
7489290 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
7489337 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
7489384 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
7489433 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
7489482 TAGGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
7489529 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
7489576 TAAG
1 TAAG
7489580 TCCCGAAGGG
Statistics
Matches: 464, Mismatches: 12, Indels: 16
0.94 0.02 0.03
Matches are distributed among these distances:
45 1 0.00
47 216 0.47
48 1 0.00
49 246 0.53
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:7489472 original size:241 final size:239
Alignment explanation
Indices: 7489049--7489579 Score: 918
Period size: 241 Copynumber: 2.2 Consensus size: 239
7489039 GAAATGATAG
*
7489049 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
7489114 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
7489179 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
131 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
7489244 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
196 GGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
*
7489290 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
7489355 GTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
7489420 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
131 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
7489485 GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
196 GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
* * * * * * * *
7489529 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
7489580 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
239 56 0.20
241 219 0.80
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (239 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
Found at i:7489754 original size:37 final size:37
Alignment explanation
Indices: 7489698--7489776 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
7489688 CCGAGCTCTA
* * *
7489698 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
7489735 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
7489772 AAGAC
1 AAGAC
7489777 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:7499207 original size:10 final size:10
Alignment explanation
Indices: 7499192--7499222 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
7499182 CGTATCTTTA
7499192 GAAAAAAATT
1 GAAAAAAATT
7499202 GAAAAAAATTT
1 GAAAAAAA-TT
7499213 GAAAAAAATT
1 GAAAAAAATT
7499223 CGTGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (10 bp):
GAAAAAAATT
Found at i:7499228 original size:13 final size:11
Alignment explanation
Indices: 7499192--7499222 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7499182 CGTATCTTTA
7499192 GAAAAAAA-TT
1 GAAAAAAATTT
7499202 GAAAAAAATTT
1 GAAAAAAATTT
7499213 GAAAAAAATT
1 GAAAAAAATT
7499223 CGTGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (11 bp):
GAAAAAAATTT
Found at i:7510074 original size:21 final size:21
Alignment explanation
Indices: 7510025--7510091 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
7510015 CCTCTTTGAA
* * *
7510025 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
7510048 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
7510069 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
7510090 CC
1 CC
7510092 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:7512897 original size:29 final size:29
Alignment explanation
Indices: 7512864--7512923 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
7512854 ATAACCAAAC
*
7512864 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
7512893 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
7512922 CT
1 CT
7512924 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:7512916 original size:15 final size:15
Alignment explanation
Indices: 7512870--7512917 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
7512860 AAACCTACAA
*
7512870 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
7512885 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
7512899 AAACTTCATATCCAT
1 AAACTTCATATCCAT
7512914 AAAC
1 AAAC
7512918 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:7517167 original size:30 final size:29
Alignment explanation
Indices: 7517124--7517183 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
7517114 CAAGTAACTG
*
7517124 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
7517153 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
7517183 A
1 A
7517184 TGCTTTCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:7518768 original size:38 final size:38
Alignment explanation
Indices: 7518725--7518802 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
7518715 TTCAACTAAG
7518725 TATGAAGAAATTTCTTGATTGGGATGGATTTTGGTTAT
1 TATGAAGAAATTTCTTGATTGGGATGGATTTTGGTTAT
*
7518763 TATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTAT
1 TATGAAGAAATTTCTTGATTGGGATGGATTTTGGTTAT
7518801 TA
1 TA
7518803 GGCCTCGCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (38 bp):
TATGAAGAAATTTCTTGATTGGGATGGATTTTGGTTAT
Found at i:7521978 original size:48 final size:49
Alignment explanation
Indices: 7521856--7521987 Score: 158
Period size: 48 Copynumber: 2.7 Consensus size: 49
7521846 ATGAGATCTC
* *
7521856 GTGTGAGACCATGTCTGGGACATGGCATCAGCATCTGAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGAGATGAGAGCCA
* * * * * *
7521905 ATGTAAGACCATGTTTGGGACATGGCATCGGCGT-TGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGAGATGAGAGCCA
* * *
7521953 GTGTAAGACCATATCTAGGATATGGCATCGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATC
7521988 AGTATGTGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
48 39 0.57
49 29 0.43
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATCTGAGATGAGAGCCA
Found at i:7524732 original size:49 final size:50
Alignment explanation
Indices: 7524648--7524866 Score: 228
Period size: 49 Copynumber: 4.4 Consensus size: 50
7524638 GTAACTAAAG
* * * *
7524648 CTATCTAGTACGCATAGTAGCCTACACTTAGTACTACACATGCGA-CCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAGCCAA
* * *
7524697 CAATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAGCC-AA
* * * * * * *
7524747 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAGCCAA
* * * *
7524797 GTTGTCGGGTACACGTAGTAGCCTGCACTTAG-ACTACACATGCGAGCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAGCCAA
*
7524847 CTATCTAGTACACGTAGTAG
1 CTATCTGGTACACGTAGTAG
7524867 TGATACGAGC
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 58 0.41
50 57 0.40
51 27 0.19
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAGCCAA
Found at i:7524768 original size:50 final size:50
Alignment explanation
Indices: 7524662--7524866 Score: 227
Period size: 50 Copynumber: 4.1 Consensus size: 50
7524652 CTAGTACGCA
* * * *
7524662 TAGTAGCCTACACTTAGTACTACACATGCGACC-AACAATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATACACG
* *
7524711 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATACACG
* * * * * * * * *
7524761 TAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGTTGTCGGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CTATCTGATACACG
*
7524812 TAGTAGCCTGCACTTAG-ACTACACATGCGAGCTAACTATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGA-TACACG
7524861 TAGTAG
1 TAGTAG
7524867 TGATACGAGC
Statistics
Matches: 130, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 46 0.35
50 58 0.45
51 26 0.20
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATACACG
Found at i:7528459 original size:49 final size:49
Alignment explanation
Indices: 7528404--7528497 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
7528394 TGACTTGGTT
*
7528404 GTGTGAACTTAAATTGATGCTAACATCATAAATAGAGAGTCACACACCC
1 GTGTGAACTTAAATTGACGCTAACATCATAAATAGAGAGTCACACACCC
* *
7528453 GTGTGAACTTAAATTGACGCTGACATCATAAATAGAGAGTTACAC
1 GTGTGAACTTAAATTGACGCTAACATCATAAATAGAGAGTCACAC
7528498 GGCCTGGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (49 bp):
GTGTGAACTTAAATTGACGCTAACATCATAAATAGAGAGTCACACACCC
Found at i:7536090 original size:53 final size:53
Alignment explanation
Indices: 7536009--7536118 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
7535999 AGCATTGCTG
* * *
7536009 CCAGAACAGATAATGTGATAGAGTCACCAGAACAGATAATTGTGG-AGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
* * * *
7536061 CCAGAACAGATGTATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
7536115 CCAG
1 CCAG
7536119 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 11 0.22
53 28 0.57
54 10 0.20
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCAGAGCCA
Found at i:7536092 original size:27 final size:26
Alignment explanation
Indices: 7536009--7536118 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
7535999 AGCATTGCTG
** *
7536009 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
7536035 CCAGAACAGATAATTGTGG-AGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
*
7536061 CCAGAACAGATGTATGTGGCAGAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
* *
7536088 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
7536115 CCAG
1 CCAG
7536119 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 35 0.47
27 39 0.53
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:7536554 original size:16 final size:15
Alignment explanation
Indices: 7536533--7536563 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7536523 TTAAAATGTC
7536533 AGCTTTTCGGCATTTT
1 AGCTTTTCGGC-TTTT
7536549 AGCTTTTCGGCTTTT
1 AGCTTTTCGGCTTTT
7536564 GCCGATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (15 bp):
AGCTTTTCGGCTTTT
Found at i:7537473 original size:35 final size:37
Alignment explanation
Indices: 7537402--7537473 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
7537392 ATCCAAGTAT
*
7537402 AGGGAAAAGAAATTATCAACCTACAACCCAAAAAGAA
1 AGGGAAAAGAAACTATCAACCTACAACCCAAAAAGAA
**
7537439 AGGG-AAAGAAACTATCGGCCTAC-ACCCAAAAAGAA
1 AGGGAAAAGAAACTATCAACCTACAACCCAAAAAGAA
7537474 GGCCAAAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 12 0.38
36 16 0.50
37 4 0.12
ACGTcount: A:0.53, C:0.21, G:0.17, T:0.10
Consensus pattern (37 bp):
AGGGAAAAGAAACTATCAACCTACAACCCAAAAAGAA
Found at i:7544586 original size:17 final size:18
Alignment explanation
Indices: 7544554--7544588 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7544544 CAATGCCATT
7544554 TGCCCATGTGGGCCCACA
1 TGCCCATGTGGGCCCACA
*
7544572 TGCCCGTGT-GGCCCACA
1 TGCCCATGTGGGCCCACA
7544589 AAGCCCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
TGCCCATGTGGGCCCACA
Found at i:7547636 original size:20 final size:20
Alignment explanation
Indices: 7547589--7547636 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
7547579 AGTAAGCTCG
7547589 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
7547609 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
7547629 GTTGAGCT
1 GTTGAGCT
7547637 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:7549882 original size:49 final size:49
Alignment explanation
Indices: 7549759--7549928 Score: 146
Period size: 49 Copynumber: 3.5 Consensus size: 49
7549749 TGTGTGTTAG
* * * * * * * *
7549759 TGTAAGACCTGTTTGGGACATAGCATTGAGATCGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATCAAAGCCAA
* * * * *
7549808 TGTAAGACCTGTCTAGGATACGGCATCGACCTCGATATATCAAAGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATCAAAGCCAA
* * * * * *
7549857 TGTAAGACCTGTCTGGGACATGGCATCAACTTTGATGT-GC-TAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATCAAAGCCAA
7549904 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
7549929 GTCAGCATCT
Statistics
Matches: 97, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
47 14 0.14
48 16 0.16
49 67 0.69
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACATCGATATATCAAAGCCAA
Found at i:7554946 original size:39 final size:40
Alignment explanation
Indices: 7554901--7555109 Score: 125
Period size: 41 Copynumber: 5.2 Consensus size: 40
7554891 CGGGGTTTAG
* * *
7554901 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
7554940 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
7554980 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
7555020 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
7555061 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
7555102 CCGGATAT
1 CCGGATAT
7555110 CATTCGAGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 68 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:7555051 original size:41 final size:41
Alignment explanation
Indices: 7554924--7555109 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
7554914 CTCGCACAAG
* * * * * *
7554924 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
7554964 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
7555004 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
7555045 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
7555086 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
7555110 CATTCGAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.44
41 68 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:7555058 original size:81 final size:82
Alignment explanation
Indices: 7554924--7555107 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
7554914 CTCGCACAAG
* * * * * * *
7554924 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
7554988 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
7555004 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
7555068 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
7555086 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
7555108 ATCATTCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.23
81 38 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:7571996 original size:40 final size:40
Alignment explanation
Indices: 7571941--7572018 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
7571931 TGAAAAAAAA
7571941 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * *
7571981 TATAACCGGGTTAAGTCTCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
7572019 GTTACATCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:7573891 original size:19 final size:20
Alignment explanation
Indices: 7573869--7573906 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7573859 CTGTTTTGTT
7573869 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
*
7573888 ATGGGCCCAACTGTGTTAA
1 ATGGGCCCAACTGTATTAA
7573907 TATAGGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Done.