Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_pilon, whole genome shotgun sequence
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: 2731752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 10 of 13
Found at i:2036564 original size:27 final size:27
Alignment explanation
Indices: 2036508--2036629 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
2036498 TGCAGTGGCG
**
2036508 GGAGGAGGAGGGGATGGGGTGGTTGAA
1 GGAGGAGGAGCTGATGGGGTGGTTGAA
*
2036535 GGAGGA-G-G-TGATGGGGT-G--GAG
1 GGAGGAGGAGCTGATGGGGTGGTTGAA
2036556 GGAGGAGGAGCTGATGGGGTGGTTGAA
1 GGAGGAGGAGCTGATGGGGTGGTTGAA
2036583 GGAGGAGGAGCTGATGGGGTGGTTGAA
1 GGAGGAGGAGCTGATGGGGTGGTTGAA
2036610 GGAGGAGGAGCTGATGGGGT
1 GGAGGAGGAGCTGATGGGGT
2036630 AGCGGGCGGT
Statistics
Matches: 86, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
21 8 0.09
22 1 0.01
23 2 0.02
24 17 0.20
25 2 0.02
26 1 0.01
27 55 0.64
ACGTcount: A:0.21, C:0.02, G:0.60, T:0.16
Consensus pattern (27 bp):
GGAGGAGGAGCTGATGGGGTGGTTGAA
Found at i:2036613 original size:48 final size:47
Alignment explanation
Indices: 2036502--2036629 Score: 139
Period size: 48 Copynumber: 2.5 Consensus size: 47
2036492 TGGAGCTGCA
* **
2036502 GTGGCGGGAGGAGGAGGGGATGGGGTGGTTGAAGGAGGAGGTGATGGG
1 GTGGAGGGA-GAGGAGCTGATGGGGTGGTTGAAGGAGGAGGTGATGGG
2036550 GTGGAGGGAGGAGGAGCTGATGGGGTGGTTGAAGGAGGAGGAGCTGATGGG
1 GTGGAGGGA-GAGGAGCTGATGGGGTGGTTGAAGGAGGA-G-G-TGATGGG
*
2036601 GTGGTTGAAGGAGGAGGAGCTGATGGGGT
1 GT-G--GAGGGA-GAGGAGCTGATGGGGT
2036630 AGCGGGCGGT
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
48 36 0.51
49 1 0.01
50 1 0.01
51 9 0.13
52 1 0.01
54 22 0.31
ACGTcount: A:0.20, C:0.03, G:0.60, T:0.16
Consensus pattern (47 bp):
GTGGAGGGAGAGGAGCTGATGGGGTGGTTGAAGGAGGAGGTGATGGG
Found at i:2036951 original size:6 final size:6
Alignment explanation
Indices: 2036940--2036965 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2036930 CAGCTGCTGG
2036940 CCCCGC CCCCGC CCCCGC CCCCGC CC
1 CCCCGC CCCCGC CCCCGC CCCCGC CC
2036966 TCACGTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.85, G:0.15, T:0.00
Consensus pattern (6 bp):
CCCCGC
Found at i:2037900 original size:16 final size:17
Alignment explanation
Indices: 2037868--2037901 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2037858 TCATATTTAT
*
2037868 TAATATGAAATATAATA
1 TAATATGAAAAATAATA
2037885 TAATAT-AAAAATAATA
1 TAATATGAAAAATAATA
2037901 T
1 T
2037902 TATGGTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TAATATGAAAAATAATA
Found at i:2037939 original size:16 final size:17
Alignment explanation
Indices: 2037920--2037956 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2037910 TAAAATATTA
2037920 TTTTA-AATAATTAC-AT
1 TTTTACAATAA-TACTAT
2037936 TTTTACAATAATACTAT
1 TTTTACAATAATACTAT
2037953 TTTT
1 TTTT
2037957 TTCATCCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATACTAT
Found at i:2038019 original size:23 final size:24
Alignment explanation
Indices: 2037967--2038012 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2037957 TTCATCCAAT
*
2037967 AAAATTATAAATAGTAAAATATTG
1 AAAATTAAAAATAGTAAAATATTG
2037991 AAAATTAAAAATA-TAAAATATT
1 AAAATTAAAAATAGTAAAATATT
2038013 TTAAATTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATTAAAAATAGTAAAATATTG
Found at i:2040454 original size:21 final size:20
Alignment explanation
Indices: 2040419--2040568 Score: 101
Period size: 21 Copynumber: 7.2 Consensus size: 20
2040409 ATTGCGATTT
*
2040419 TCCAAATTC-GTTGCGATAG
1 TCCAAGTTCGGTTGCGATAG
* *
2040438 TCGAAGTTCGTGTTGCGATTTAT
1 TCCAAGTTCG-GTTGCGA--TAG
* *
2040461 TCCAAGTTC-GTTACAATAG
1 TCCAAGTTCGGTTGCGATAG
* *
2040480 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCG-GTTGCGA--TAG
*
2040503 TCCAAATTC-GTTGCGATAG
1 TCCAAGTTCGGTTGCGATAG
*
2040522 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCG-GTTGCGA--TAG
*
2040545 TCCAAATTC-GTTGCGATAG
1 TCCAAGTTCGGTTGCGATAG
2040564 TCCAA
1 TCCAA
2040569 AATCGCAACG
Statistics
Matches: 101, Mismatches: 18, Indels: 24
0.71 0.13 0.17
Matches are distributed among these distances:
19 34 0.34
21 38 0.38
23 29 0.29
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (20 bp):
TCCAAGTTCGGTTGCGATAG
Found at i:2040471 original size:42 final size:42
Alignment explanation
Indices: 2040404--2040565 Score: 256
Period size: 42 Copynumber: 3.9 Consensus size: 42
2040394 GATTTACATA
*
2040404 TTCGCATTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
* * * *
2040444 TTCGTGTTGCGATTTATTCCAAGTTCGTTACAATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
*
2040486 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
2040528 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
2040566 CAAAATCGCA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 10 0.09
41 2 0.02
42 98 0.89
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (42 bp):
TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
Found at i:2040691 original size:5 final size:5
Alignment explanation
Indices: 2040681--2040706 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2040671 CCACGACCCT
2040681 AGACG AGACG AGACG AGACG AGACG A
1 AGACG AGACG AGACG AGACG AGACG A
2040707 ACGGCGGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.38, T:0.00
Consensus pattern (5 bp):
AGACG
Found at i:2041282 original size:21 final size:21
Alignment explanation
Indices: 2041224--2041333 Score: 152
Period size: 21 Copynumber: 5.3 Consensus size: 21
2041214 TCGTGGTAAT
*
2041224 ACGCGAACTTCGACTATCGCA
1 ACGCGAACTTGGACTATCGCA
* **
2041245 A--CGAATTTGGAAAATCGCA
1 ACGCGAACTTGGACTATCGCA
*
2041264 ACGCGAACTTCGACTATCGCA
1 ACGCGAACTTGGACTATCGCA
2041285 ACGCGAACTTGGACTATCGCA
1 ACGCGAACTTGGACTATCGCA
2041306 ACGCGAACTTGGACTATCGCA
1 ACGCGAACTTGGACTATCGCA
*
2041327 ATGCGAA
1 ACGCGAA
2041334 TATGTAAATC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.19
21 62 0.81
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (21 bp):
ACGCGAACTTGGACTATCGCA
Found at i:2041371 original size:21 final size:21
Alignment explanation
Indices: 2041342--2041394 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
2041332 AATATGTAAA
*
2041342 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
2041363 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
2041384 TCGCGTTGCGA
1 TCGCGTTGCGA
2041395 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:2042628 original size:6 final size:7
Alignment explanation
Indices: 2042611--2042635 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2042601 ATTACAAAGA
2042611 AAAAAAT
1 AAAAAAT
2042618 AAAAAAT
1 AAAAAAT
2042625 AAAAAAT
1 AAAAAAT
2042632 AAAA
1 AAAA
2042636 TAGTAATAAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:2042731 original size:11 final size:11
Alignment explanation
Indices: 2042715--2042739 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2042705 TCAAAGAAAT
2042715 AAAAATAAAGA
1 AAAAATAAAGA
2042726 AAAAATAAAGA
1 AAAAATAAAGA
2042737 AAA
1 AAA
2042740 TAAAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAATAAAGA
Found at i:2042740 original size:26 final size:26
Alignment explanation
Indices: 2042678--2042745 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
2042668 TAAGTGCACG
*
2042678 AAATAAA-AAAAT-AAAATAAAATGA
1 AAATAAAGAAAATAAAAATAAAATAA
*
2042702 ACATCAAAG-AAATAAAAATAAAGA-AA
1 AAAT-AAAGAAAATAAAAATAAA-ATAA
2042728 AAATAAAGAAAATAAAAA
1 AAATAAAGAAAATAAAAA
2042746 AATCAACTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 3 0.08
25 11 0.31
26 21 0.58
27 1 0.03
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (26 bp):
AAATAAAGAAAATAAAAATAAAATAA
Found at i:2042907 original size:10 final size:10
Alignment explanation
Indices: 2042892--2042918 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2042882 ACTTATGAGT
2042892 AAAATATTAA
1 AAAATATTAA
2042902 AAAATATTAA
1 AAAATATTAA
2042912 AAAATAT
1 AAAATAT
2042919 AAATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATATTAA
Found at i:2042912 original size:18 final size:19
Alignment explanation
Indices: 2042891--2042958 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
2042881 GACTTATGAG
*
2042891 TAAAATATTAAAAAATAT-
1 TAAAATAATAAAAAATATA
*
2042909 TAAAA-AATATAAATATATA
1 TAAAATAATA-AAAAATATA
*
2042928 TAAAATAATAAAATATAGTA
1 TAAAATAATAAAAAATA-TA
*
2042948 TAAAAAAATAA
1 TAAAATAATAA
2042959 TCAAATGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 3 0.07
18 12 0.28
19 12 0.28
20 16 0.37
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (19 bp):
TAAAATAATAAAAAATATA
Found at i:2042928 original size:10 final size:10
Alignment explanation
Indices: 2042915--2043013 Score: 52
Period size: 10 Copynumber: 10.3 Consensus size: 10
2042905 ATATTAAAAA
2042915 ATATAAATAT
1 ATATAAATAT
2042925 ATATAAA-AT
1 ATATAAATAT
2042934 A-ATAAAATAT
1 ATAT-AAATAT
2042944 AGTATAAA-A-
1 A-TATAAATAT
* *
2042953 AAAT-AATCAA
1 ATATAAAT-AT
2042963 ATGA-AAATA-
1 AT-ATAAATAT
*
2042972 AT-TTAATAT
1 ATATAAATAT
*
2042981 ATATATATAT
1 ATATAAATAT
*
2042991 ATATATATAT
1 ATATAAATAT
*
2043001 ATATATATAT
1 ATATAAATAT
2043011 ATA
1 ATA
2043014 CACGTATAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
7 2 0.03
8 8 0.11
9 12 0.17
10 41 0.57
11 7 0.10
12 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (10 bp):
ATATAAATAT
Found at i:2042958 original size:20 final size:19
Alignment explanation
Indices: 2042905--2042958 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
2042895 ATATTAAAAA
*
2042905 ATATTAAAAAATATAAATAT
1 ATATAAAAAAATA-AAATAT
*
2042925 ATATAAAATAATAAAATAT
1 ATATAAAAAAATAAAATAT
2042944 AGTATAAAAAAATAA
1 A-TATAAAAAAATAA
2042959 TCAAATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATATAAAAAAATAAAATAT
Found at i:2042984 original size:2 final size:2
Alignment explanation
Indices: 2042977--2043013 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2042967 AAATAATTTA
2042977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2043014 CACGTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2046089 original size:9 final size:8
Alignment explanation
Indices: 2046062--2046110 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 8
2046052 ACTCACCTTA
2046062 TTTTTCTT
1 TTTTTCTT
*
2046070 TTCATTCTT
1 TT-TTTCTT
*
2046079 TTGTTCTTT
1 TTTTTC-TT
2046088 TTTTTCTCT
1 TTTTTCT-T
2046097 TTTTTCTT
1 TTTTTCTT
2046105 TTTTTC
1 TTTTTC
2046111 AATTTAGAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
8 13 0.37
9 22 0.63
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTCTT
Found at i:2046110 original size:17 final size:16
Alignment explanation
Indices: 2046062--2046110 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2046052 ACTCACCTTA
*
2046062 TTTTTCTTTTCATTCTT
1 TTTTTCTTTT-TTTCTT
*
2046079 TTGTTCTTTTTTTTCTCT
1 TTTTTC-TTTTTTTCT-T
2046097 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
2046111 AATTTAGAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTTCTT
Found at i:2046908 original size:45 final size:46
Alignment explanation
Indices: 2046842--2046948 Score: 164
Period size: 45 Copynumber: 2.3 Consensus size: 46
2046832 GGTGCACTAA
*
2046842 GAGTGTATCGATGCATAAAATGCATTCGATG-TTTCA-AAACAGCCT
1 GAGTGTATCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACCCT
* *
2046887 GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCT
1 GAGTGTATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
2046933 GAGTGTATCGATGCAT
1 GAGTGTATCGATGCAT
2046949 GGTATGTGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 29 0.52
46 24 0.43
47 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (46 bp):
GAGTGTATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
Found at i:2047023 original size:65 final size:64
Alignment explanation
Indices: 2046889--2047034 Score: 163
Period size: 65 Copynumber: 2.2 Consensus size: 64
2046879 AACAGCCTGA
* *
2046889 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAGTGTATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAACCATGAGTGCATCGATGCATGGTAT
* * **
2046954 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-A-TAAAACCATGAGTGCATCGATGCATGGTA
2047016 TT
64 -T
*
2047018 GGTGCATCGGTGCATCA
1 -GTGCATCGATGCATCA
2047035 CTTTGAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
63 4 0.06
64 17 0.25
65 48 0.70
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAACCATGAGTGCATCGATGCATGGTAT
Found at i:2049462 original size:23 final size:22
Alignment explanation
Indices: 2049432--2049513 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
2049422 GCATGGCCTT
2049432 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
2049454 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
2049476 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
*
2049499 GATGTATCGATGCAC
1 G-TGCATCGATGCAC
2049514 TGTTAAGTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.39
24 13 0.27
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:2049488 original size:21 final size:22
Alignment explanation
Indices: 2049436--2049513 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
2049426 GGCCTTGTGC
*
2049436 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAAGG-GTGT
* * *
2049459 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGT
2049480 ATCGATGCACATTCAAAGGGATGT
1 ATCGATGCACATTC-AAGGG-TGT
2049504 ATCGATGCAC
1 ATCGATGCAC
2049514 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 15 0.33
24 13 0.29
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGT
Found at i:2065478 original size:6 final size:6
Alignment explanation
Indices: 2065467--2065519 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
2065457 TTACAAAGAA
2065467 AAAAAT AAAAAT --AAAT AAAAAT AAAAAT AAAAGGA- AAAAAT AATAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA--AT AAAAAT AA-AAAT
2065515 AAAAA
1 AAAAA
2065520 AGTAATAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
4 4 0.10
5 1 0.02
6 25 0.61
7 10 0.24
8 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:2065488 original size:16 final size:16
Alignment explanation
Indices: 2065467--2065519 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
2065457 TTACAAAGAA
2065467 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
2065483 AAAAATAAAAATAAA-
1 AAAAATAAAAATAAAT
*
2065498 AGGAAAA-AATAATAAAT
1 A--AAAATAAAAATAAAT
2065515 AAAAA
1 AAAAA
2065520 AGTAATAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 5 0.15
16 23 0.70
17 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:2065511 original size:22 final size:22
Alignment explanation
Indices: 2065467--2065521 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
2065457 TTACAAAGAA
**
2065467 AAAAATAAAAATAAATAAAAAT
1 AAAAATAAAAGGAAATAAAAAT
2065489 AAAAATAAAAGGAAA-AAATAAT
1 AAAAATAAAAGGAAATAAA-AAT
2065511 AAATAA-AAAAG
1 AAA-AATAAAAG
2065522 TAATAATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 24 0.83
23 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGGAAATAAAAAT
Found at i:2065602 original size:26 final size:26
Alignment explanation
Indices: 2065561--2065628 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
2065551 TAAGAGCAAG
*
2065561 AAATAAA-AAAAT-AAAATAAAATGA
1 AAATAAAGAAAATAAAAATAAAATAA
* *
2065585 ACATCAAAG-AAATAAAAATAAAGTAA
1 AAAT-AAAGAAAATAAAAATAAAATAA
2065611 AAATAAAGAAAATAAAAA
1 AAATAAAGAAAATAAAAA
2065629 ATCAACTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.08
25 11 0.31
26 22 0.61
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (26 bp):
AAATAAAGAAAATAAAAATAAAATAA
Found at i:2065638 original size:27 final size:25
Alignment explanation
Indices: 2065561--2065641 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 25
2065551 TAAGAGCAAG
* * *
2065561 AAATAAAAAAAT-AAAATAAAATGA
1 AAATAAAGAAATAAAAATAAACTAA
* *
2065585 ACATCAAAGAAATAAAAATAAAGTAA
1 AAAT-AAAGAAATAAAAATAAACTAA
*
2065611 AAATAAAGAAAATAAAAAATCAACTAA
1 AAATAAAG-AAAT-AAAAATAAACTAA
2065638 AAAT
1 AAAT
2065642 GATTAATGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.07
25 11 0.24
26 17 0.37
27 15 0.33
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (25 bp):
AAATAAAGAAATAAAAATAAACTAA
Found at i:2065792 original size:2 final size:2
Alignment explanation
Indices: 2065785--2065815 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2065775 AAATATTAAA
2065785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2065816 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2065840 original size:19 final size:21
Alignment explanation
Indices: 2065781--2065841 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 21
2065771 AGTAAAATAT
*
2065781 TAAAATATATATATAT--ATA
1 TAAAATATATATATATAAAAA
* *
2065800 T-ATATATATATATATAACAA
1 TAAAATATATATATATAAAAA
2065820 TAAAATATA-ATATA-AAAAA
1 TAAAATATATATATATAAAAA
2065839 TAA
1 TAA
2065842 TCAAATGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 13 0.38
19 8 0.24
20 7 0.21
21 6 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAATATATATATATAAAAA
Found at i:2073548 original size:19 final size:19
Alignment explanation
Indices: 2073524--2073561 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2073514 TATTATTCAT
2073524 TGAGGTCATGGGTTCAAAC
1 TGAGGTCATGGGTTCAAAC
2073543 TGAGGTCATGGGTTCAAAC
1 TGAGGTCATGGGTTCAAAC
2073562 ATCATGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (19 bp):
TGAGGTCATGGGTTCAAAC
Found at i:2082203 original size:43 final size:43
Alignment explanation
Indices: 2082155--2082259 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
2082145 TTTAATTAGT
* * *
2082155 GGCGTTTGTATAATAAAACAACACTAAATACATAGTCAATTCC
1 GGCGTTTATAAAATAAAACAACACTAAATACATAGTCAATACC
**
2082198 GGCGTTTATAAAATAAAACGCCACTAAATACATAGTCAATACC
1 GGCGTTTATAAAATAAAACAACACTAAATACATAGTCAATACC
* *
2082241 GGCATTTATAAAACAAAAC
1 GGCGTTTATAAAATAAAAC
2082260 GCTACTAAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (43 bp):
GGCGTTTATAAAATAAAACAACACTAAATACATAGTCAATACC
Found at i:2082260 original size:43 final size:43
Alignment explanation
Indices: 2082176--2082268 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
2082166 AATAAAACAA
* * *
2082176 CACTAAATACATAGTCAATTCCGGCGTTTATAAAATAAAACGC
1 CACTAAATACATAGTCAATACCGGCATTTATAAAACAAAACGC
2082219 CACTAAATACATAGTCAATACCGGCATTTATAAAACAAAACGC
1 CACTAAATACATAGTCAATACCGGCATTTATAAAACAAAACGC
*
2082262 TACTAAA
1 CACTAAA
2082269 GTTAAAGATC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.24
Consensus pattern (43 bp):
CACTAAATACATAGTCAATACCGGCATTTATAAAACAAAACGC
Found at i:2083487 original size:12 final size:12
Alignment explanation
Indices: 2083470--2083503 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2083460 TAGGTATCGG
2083470 TACATATATACA
1 TACATATATACA
*
2083482 TACATATATATA
1 TACATATATACA
*
2083494 TATATATATA
1 TACATATATA
2083504 AGTATCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
TACATATATACA
Found at i:2084089 original size:75 final size:73
Alignment explanation
Indices: 2083966--2084298 Score: 396
Period size: 75 Copynumber: 4.4 Consensus size: 73
2083956 CTTAACCGGT
* * * *
2083966 TAAAATAAAATAGGCCCTACTTATTATGTTAAACTACATACCGGTTTGTTTGAATGTTACTAATA
1 TAAAATAAAATAGGCGCTAC-TATTACGTTAAACTACCTACCGGTTTGTTT-AAGGTTACTAATA
2084031 ATGTAAACGG
64 ATGTAAACGG
* * *
2084041 TAAAATAAAATAGGTGCTATCTATTACGTTAAAATACCTACCGATTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCGCTA-CTATTACGTTAAACTACCTACCGGTTTGTTT-AAGGTTACTAATA
2084106 ATGTAAACGG
64 ATGTAAACGG
** * * *
2084116 TAAAATAAAATATACACTACCTATTACGTTAAATTACCTACCGGTTTGTTTAAAGATTACTAATA
1 TAAAATAAAATAGGCGCTA-CTATTACGTTAAACTACCTACCGGTTTGTTT-AAGGTTACTAATA
2084181 ATGTAAACGG
64 ATGTAAACGG
* ** * *
2084191 TAAAATAAAATAGGTGCTACATATTACGTTAAACTAGTTATCGGTTTGTTTTAAGGTTAATAATA
1 TAAAATAAAATAGGCGCTAC-TATTACGTTAAACTACCTACCGGTTTG-TTTAAGGTTACTAATA
*
2084256 ATGTAAAAGG
64 ATGTAAACGG
* * *
2084266 TAAAATAAAACAGGCGTTACCTATTATGTTAAA
1 TAAAATAAAATAGGCGCTA-CTATTACGTTAAA
2084299 TATGTGCTAC
Statistics
Matches: 223, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
74 1 0.00
75 217 0.97
76 5 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (73 bp):
TAAAATAAAATAGGCGCTACTATTACGTTAAACTACCTACCGGTTTGTTTAAGGTTACTAATAAT
GTAAACGG
Found at i:2084299 original size:150 final size:150
Alignment explanation
Indices: 2083966--2084299 Score: 465
Period size: 150 Copynumber: 2.2 Consensus size: 150
2083956 CTTAACCGGT
* * * *
2083966 TAAAATAAAATAGGCCCTACTTATTATGTTAAACTACATACCGGTTTGTTTGAATGTTACTAATA
1 TAAAATAAAATAGGCACTACCTATTATGTTAAATTACATACCGGTTTGTTTGAAAGTTACTAATA
2084031 ATGTAAACGGTAAAATAAAATAGGTGCTATCTATTACGTTAAAATACCTACCGATTTGTTTAAAG
66 ATGTAAACGGTAAAATAAAATAGGTGCTATCTATTACGTTAAAATACCTACCGATTTGTTTAAAG
* *
2084096 GTTACTAATAATGTAAACGG
131 GTTAATAATAATGTAAAAGG
** * *
2084116 TAAAATAAAATATACACTACCTATTACGTTAAATTACCTACCGGTTTGTTT-AAAGATTACTAAT
1 TAAAATAAAATAGGCACTACCTATTATGTTAAATTACATACCGGTTTGTTTGAAAG-TTACTAAT
* ** * * *
2084180 AATGTAAACGGTAAAATAAAATAGGTGCTA-CATATTACGTTAAACTAGTTATCGGTTTGTTTTA
65 AATGTAAACGGTAAAATAAAATAGGTGCTATC-TATTACGTTAAAATACCTACCGATTTGTTTAA
2084244 AGGTTAATAATAATGTAAAAGG
129 AGGTTAATAATAATGTAAAAGG
* **
2084266 TAAAATAAAACAGGCGTTACCTATTATGTTAAAT
1 TAAAATAAAATAGGCACTACCTATTATGTTAAAT
2084300 ATGTGCTACC
Statistics
Matches: 160, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
149 4 0.03
150 156 0.98
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (150 bp):
TAAAATAAAATAGGCACTACCTATTATGTTAAATTACATACCGGTTTGTTTGAAAGTTACTAATA
ATGTAAACGGTAAAATAAAATAGGTGCTATCTATTACGTTAAAATACCTACCGATTTGTTTAAAG
GTTAATAATAATGTAAAAGG
Found at i:2084309 original size:23 final size:23
Alignment explanation
Indices: 2084279--2084367 Score: 142
Period size: 23 Copynumber: 3.9 Consensus size: 23
2084269 AATAAAACAG
* *
2084279 GCGTTACCTATTATGTTAAATAT
1 GCGTTACCTATTACGTTAAATAA
* *
2084302 GTGCTACCTATTACGTTAAATAA
1 GCGTTACCTATTACGTTAAATAA
2084325 GCGTTACCTATTACGTTAAATAA
1 GCGTTACCTATTACGTTAAATAA
2084348 GCGTTACCTATTACGTTAAA
1 GCGTTACCTATTACGTTAAA
2084368 CTAACTACTG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (23 bp):
GCGTTACCTATTACGTTAAATAA
Found at i:2093392 original size:30 final size:31
Alignment explanation
Indices: 2093345--2093407 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
2093335 ATATTTGAGC
2093345 ATTCATTGTCAAACATTTAAGAATCTTTCGA
1 ATTCATTGTCAAACATTTAAGAATCTTTCGA
2093376 ATTCATTGTC-AACATTTAAGAATCTTTCGA
1 ATTCATTGTCAAACATTTAAGAATCTTTCGA
2093406 AT
1 AT
2093408 AAATAATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (31 bp):
ATTCATTGTCAAACATTTAAGAATCTTTCGA
Found at i:2097817 original size:23 final size:23
Alignment explanation
Indices: 2097786--2097830 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2097776 CGCCACAGCT
*
2097786 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
2097809 CGTAGAAATGCACTGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2097831 ATATAATGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2099389 original size:20 final size:20
Alignment explanation
Indices: 2099364--2099401 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2099354 TTCCCCTTGA
*
2099364 AGTGCATTGATACATTCTAC
1 AGTGCATCGATACATTCTAC
*
2099384 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
2099402 TTAACATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:2102841 original size:23 final size:23
Alignment explanation
Indices: 2102810--2102854 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2102800 CACCACATCT
*
2102810 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
2102833 CGTAGAAATGCACTGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2102855 ATATAATGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2104432 original size:24 final size:20
Alignment explanation
Indices: 2104379--2104436 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
2104369 TTTCCCTTGA
*
2104379 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
2104399 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2104422 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2104437 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2107861 original size:23 final size:23
Alignment explanation
Indices: 2107830--2107874 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2107820 CACCACAGCT
*
2107830 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
2107853 CGTAGAAATGCACTGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2107875 ATATAATGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2109461 original size:24 final size:20
Alignment explanation
Indices: 2109408--2109465 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
2109398 TTCCCCTTGA
*
2109408 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
2109428 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2109451 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2109466 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2112186 original size:3 final size:3
Alignment explanation
Indices: 2112169--2112224 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
2112159 CAAAAATAAT
*
2112169 TTA TTA -TA TTA -TA TTA TTAA TTAA TTA TTA TTA TTA TTC TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA TTA TTA TTA
2112214 TTA TTA TTA TT
1 TTA TTA TTA TT
2112225 TTTTAGCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 37 0.77
4 7 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2112257 original size:23 final size:23
Alignment explanation
Indices: 2112231--2112274 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
2112221 TATTTTTTAG
2112231 CCCACCATTACCTCACCCACTAC
1 CCCACCATTACCTCACCCACTAC
2112254 CCCACCATTACCTCACCCACT
1 CCCACCATTACCTCACCCACT
2112275 CAAACACTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.57, G:0.00, T:0.18
Consensus pattern (23 bp):
CCCACCATTACCTCACCCACTAC
Found at i:2113174 original size:21 final size:21
Alignment explanation
Indices: 2113137--2113190 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
2113127 TATTCAGATT
*
2113137 TTTATTTTTA-TTATTTTTAA
1 TTTAATTTTATTTATTTTTAA
* **
2113157 TTTAATTTTATTTCTTTTTCC
1 TTTAATTTTATTTATTTTTAA
2113178 TTTAA-TTTATTTA
1 TTTAATTTTATTTA
2113191 ATACTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTAATTTTATTTATTTTTAA
Found at i:2118222 original size:8 final size:8
Alignment explanation
Indices: 2118209--2118249 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2118199 CTCATTTTCA
2118209 GAGAATTT
1 GAGAATTT
2118217 GAGAATTT
1 GAGAATTT
*
2118225 -AGAGTTT
1 GAGAATTT
*
2118232 GGGAATTT
1 GAGAATTT
2118240 GAGAATTT
1 GAGAATTT
2118248 GA
1 GA
2118250 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:2118937 original size:125 final size:126
Alignment explanation
Indices: 2118513--2119024 Score: 911
Period size: 126 Copynumber: 4.2 Consensus size: 126
2118503 CATTGCCATG
2118513 CATTCATGT-CCTCGGGGACACTAG--ATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
1 CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
2118575 CGTTCCCGGGGG-G-G-CTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
* *
2118633 CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTAACGTGAAGGCG
1 CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
*
2118698 CGTTCCCGGGGGCGCGCCTCCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
2118759 CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
1 CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
2118824 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAG-ATATTATCATTGCCCTATTATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
2118884 CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
1 CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
2118949 CGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCC---TATGT
66 CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
*
2119006 CACTCATGTCCCTCGGGGA
1 CATTCATGTCCCTCGGGGA
2119025 ATAACTTAAA
Statistics
Matches: 378, Mismatches: 7, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
120 8 0.02
121 15 0.04
122 23 0.06
123 49 0.13
124 30 0.08
125 111 0.29
126 142 0.38
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
CATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACGTGAAGGCG
CGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGT
Found at i:2119481 original size:32 final size:32
Alignment explanation
Indices: 2119397--2119499 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 32
2119387 TAAGTTGAAA
* *
2119397 TTTAATGTTAATTTCGAATACTATAATTTATAT
1 TTTAAT-TTAAATTCGAATAATATAATTTATAT
* * *
2119430 TTTAAATTTAAATTTGAATAATATTATTTTTAT
1 TTT-AATTTAAATTCGAATAATATAATTTATAT
* *
2119463 TTTATTTTAAATTCGAATAATATAATTTGTAT
1 TTTAATTTAAATTCGAATAATATAATTTATAT
2119495 TTTAA
1 TTTAA
2119500 AAACATTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
32 29 0.49
33 27 0.46
34 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (32 bp):
TTTAATTTAAATTCGAATAATATAATTTATAT
Found at i:2119895 original size:21 final size:20
Alignment explanation
Indices: 2119869--2119986 Score: 155
Period size: 21 Copynumber: 5.6 Consensus size: 20
2119859 CCCCGAGAAC
2119869 TGTAACCTGGCGGGCTAGGAA
1 TGTAACCT-GCGGGCTAGGAA
*
2119890 TGTAACCCTGCGGGCTAGGCA
1 TGTAA-CCTGCGGGCTAGGAA
*
2119911 TGTAACCTGGCGGGCTAGGCA
1 TGTAACCT-GCGGGCTAGGAA
2119932 TGTAACCTAGCGGGCTAGGAA
1 TGTAACCT-GCGGGCTAGGAA
*
2119953 TGTAACCCTGCGGGCTCGGAA
1 TGTAA-CCTGCGGGCTAGGAA
2119974 TGTAACCCTGCGG
1 TGTAA-CCTGCGG
2119987 AGATGGCATA
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.03
21 81 0.90
22 6 0.07
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.19
Consensus pattern (20 bp):
TGTAACCTGCGGGCTAGGAA
Found at i:2119916 original size:42 final size:42
Alignment explanation
Indices: 2119869--2119986 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 42
2119859 CCCCGAGAAC
*
2119869 TGTAACCTGGCGGGCTAGGAATGTAACCCTGCGGGCTAGGCA
1 TGTAACCTGGCGGGCTAGGAATGTAACCCTGCGGGCTAGGAA
*
2119911 TGTAACCTGGCGGGCTAGGCATGTAA-CCTAGCGGGCTAGGAA
1 TGTAACCTGGCGGGCTAGGAATGTAACCCT-GCGGGCTAGGAA
*
2119953 TGTAACCCT-GCGGGCTCGGAATGTAACCCTGCGG
1 TGTAA-CCTGGCGGGCTAGGAATGTAACCCTGCGG
2119987 AGATGGCATA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
41 3 0.04
42 60 0.87
43 6 0.09
ACGTcount: A:0.21, C:0.25, G:0.35, T:0.19
Consensus pattern (42 bp):
TGTAACCTGGCGGGCTAGGAATGTAACCCTGCGGGCTAGGAA
Found at i:2121787 original size:33 final size:30
Alignment explanation
Indices: 2121729--2121805 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 30
2121719 TTAATAATTC
* * *
2121729 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAAT-ATTACATAAATATTA--AT-A
2121763 TAAAAAAATAATATTACATAAATATTAATA
1 TAAAAAAATAATATTACATAAATATTAATA
2121793 TAAAAAAATAATA
1 TAAAAAAATAATA
2121806 ACTATTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 14 0.35
31 1 0.03
33 14 0.35
34 11 0.28
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (30 bp):
TAAAAAAATAATATTACATAAATATTAATA
Found at i:2121806 original size:33 final size:34
Alignment explanation
Indices: 2121730--2121811 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 34
2121720 TAATAATTCT
* * *
2121730 AAATAAATAATAATTATATAAATATTATTTTAATAA
1 AAAT-AATAAT-ATTACATAAATATTAATATAATAA
2121766 AAA-AATAATATTACATAAATATTAATATAA-AA
1 AAATAATAATATTACATAAATATTAATATAATAA
2121798 AAATAATAACTATT
1 AAATAATAA-TATT
2121812 TAAAAAATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 5 0.12
33 23 0.56
34 10 0.24
36 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (34 bp):
AAATAATAATATTACATAAATATTAATATAATAA
Found at i:2123684 original size:19 final size:19
Alignment explanation
Indices: 2123662--2123707 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2123652 CGATATAACA
2123662 GGTAAAATATGATAAAACC
1 GGTAAAATATGATAAAACC
*
2123681 GGTATCAA-ATGATAAAACC
1 GGTA-AAATATGATAAAACC
2123700 GGTAAAAT
1 GGTAAAAT
2123708 GATACCAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
GGTAAAATATGATAAAACC
Found at i:2123709 original size:17 final size:18
Alignment explanation
Indices: 2123670--2123711 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
2123660 CAGGTAAAAT
2123670 ATGATAAAACCGGTATCAA
1 ATGATAAAACCGGTA-CAA
2123689 ATGATAAAACCGGTA-AA
1 ATGATAAAACCGGTACAA
2123706 ATGATA
1 ATGATA
2123712 CCAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (18 bp):
ATGATAAAACCGGTACAA
Found at i:2125910 original size:21 final size:21
Alignment explanation
Indices: 2125886--2125929 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2125876 AAGACAATCA
2125886 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2125907 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2125928 AG
1 AG
2125930 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2126256 original size:265 final size:270
Alignment explanation
Indices: 2125736--2126270 Score: 987
Period size: 265 Copynumber: 2.0 Consensus size: 270
2125726 GGCAGTGGAG
2125736 GCAGAGGAGAAGAAAGGAGGGGATGATTGTATTGGGGGATGAAGGGTGAGTGGGACGATGGTGAG
1 GCAGAGGAGAAGAAAGGAGGGGATGATTGTATTGGGGGATGAAGGGTGAGTGGGACGATGGTGAG
2125801 GGAAAACGTAGTAACTTCGACATTTTGATGTCTGAATTGGCTTATATCAAAAAAAATCCAATTTG
66 GGAAAACGTAGTAACTTCGACATTTTGATGTCTGAATTGGCTTATATCAAAAAAAATCCAATTTG
2125866 AAATCATGCAAAGACAATCAAGAGTCGAAGAGAAACTTGAGAGAGTCGAAGATACACTTGAGAGG
131 AAATCATGCAAAGACAATCAAGAGTCGAAGAGAAACTTGAGAGAGTCGAAGATACACTTGAGAGG
2125931 CATAAGGGGGTAGTGGAAGGAAATAGATTGAGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAG
196 CATAAGGGGGTAGTGGAAGGAAATAGATTGAGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAG
2125996 TGGTGAAAGA
261 TGGTGAAAGA
2126006 GCAGAGGAGAAGAAAGGA-GGGATGATTGTATTGGGGGATGAA-GGTGAGTGGGACGATGGTGAG
1 GCAGAGGAGAAGAAAGGAGGGGATGATTGTATTGGGGGATGAAGGGTGAGTGGGACGATGGTGAG
2126069 GGAAAACGTAGTAACTTCGACATTTTGATGTCTGAATTGGC-T-TATC-AAAAAAATCCAATTTG
66 GGAAAACGTAGTAACTTCGACATTTTGATGTCTGAATTGGCTTATATCAAAAAAAATCCAATTTG
2126131 AAATCATGCAAAGACAATCAAGA-TCGAAGAGAAAACTTGAGAGAGTCGAAGATACACTTGAGAG
131 AAATCATGCAAAGACAATCAAGAGTCGAAGAG-AAACTTGAGAGAGTCGAAGATACACTTGAGAG
2126195 GCATAAGGGGGTAGTGGAAGGAAAAATAGATTGAGTGGTGAAAGAAGTAGAGG-G-TGAGGGGTG
195 GCATAAGGGGGTAGTGGAAGG--AAATAGATTGAGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTG
2126258 AAGTGGTGAAAGA
258 AAGTGGTGAAAGA
2126271 AGTTGGGGTG
Statistics
Matches: 262, Mismatches: 0, Indels: 11
0.96 0.00 0.04
Matches are distributed among these distances:
264 8 0.03
265 114 0.44
266 5 0.02
267 31 0.12
268 62 0.24
269 24 0.09
270 18 0.07
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (270 bp):
GCAGAGGAGAAGAAAGGAGGGGATGATTGTATTGGGGGATGAAGGGTGAGTGGGACGATGGTGAG
GGAAAACGTAGTAACTTCGACATTTTGATGTCTGAATTGGCTTATATCAAAAAAAATCCAATTTG
AAATCATGCAAAGACAATCAAGAGTCGAAGAGAAACTTGAGAGAGTCGAAGATACACTTGAGAGG
CATAAGGGGGTAGTGGAAGGAAATAGATTGAGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAG
TGGTGAAAGA
Found at i:2127424 original size:18 final size:19
Alignment explanation
Indices: 2127384--2127424 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
2127374 TAAGAGATTG
2127384 TTGTATGTATGAAAGGACA
1 TTGTATGTATGAAAGGACA
2127403 -TGTATGTATG-AAGGACA
1 TTGTATGTATGAAAGGACA
2127420 TTGTA
1 TTGTA
2127425 AATTATAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (19 bp):
TTGTATGTATGAAAGGACA
Found at i:2128030 original size:17 final size:19
Alignment explanation
Indices: 2127987--2128033 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
2127977 AATGTAGGGT
2127987 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2128006 TAATTTTGTATACGA-TTA
1 TAATTTTGTATAAGATTTA
2128024 T-ATTTTGTAT
1 TAATTTTGTAT
2128034 GTGAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 14 0.52
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2128582 original size:197 final size:198
Alignment explanation
Indices: 2128151--2129283 Score: 1843
Period size: 197 Copynumber: 5.9 Consensus size: 198
2128141 CAATATGGCC
*
2128151 AACAGGGTGCAA-CATAAAGTGGTCGAT-CATATATAAAAAGTGTCGATCCCAAAAACATTGAAA
1 AACAGGGTGCAACCATAAAGT-GTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AA
*
2128214 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
* *
2128279 AGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGCGTCGGTATTTTTGTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGA
2128344 ATGGAA
193 ATGGAA
2128350 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
2128415 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
2128479 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
**
2128544 GCC
196 GAA
*
2128547 AACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
2128612 CAAAAGT-TAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
2128676 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
2128741 GGAA
195 GGAA
2128745 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
2128810 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA-AG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
2128874 -ATATGTCTAAATAATGTGTCGACAC-TTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA--
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
2128935 GAA
196 GAA
* *
2128938 AACAGGGTGCAACCATAAAGTGTCGATCC-----CAAAAA----C-AT--C---GA-A-C---CC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
2128983 AA-AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG-TTT-TGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
2129045 AATATGTCTAAATAATGTGTCGACACTTTTTAG-TT-TGTC--TATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
2129106 GAA
196 GAA
* *
2129109 AACAGGGTGCAACCATAAAGTGTTGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
2129174 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
2129239 AATATGTCTAAATAATGTGTCGACACTTTGTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
2129284 CTAATTTAAA
Statistics
Matches: 877, Mismatches: 20, Indels: 75
0.90 0.02 0.08
Matches are distributed among these distances:
169 19 0.02
170 3 0.00
171 40 0.05
172 78 0.09
173 9 0.01
176 6 0.01
177 1 0.00
178 1 0.00
180 1 0.00
181 3 0.00
183 3 0.00
184 1 0.00
186 1 0.00
187 1 0.00
188 6 0.01
191 3 0.00
192 50 0.06
193 35 0.04
194 38 0.04
195 38 0.04
196 19 0.02
197 201 0.23
198 182 0.21
199 98 0.11
200 40 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GAA
Found at i:2129068 original size:172 final size:173
Alignment explanation
Indices: 2128782--2129283 Score: 658
Period size: 172 Copynumber: 2.8 Consensus size: 173
2128772 CCATATATAA
2128782 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
2128847 CGGTACAAGTATACCGGTTTT-ATGA-AGATATGTCTAAATAATGTGTCGACACTTTTAGTTTGT
66 CGGTACAAGTATACCGGTTTTGA-GAGA-ATATGTCTAAATAATGTGTCGACACTTTTAGTTTGT
*
2128910 GTCGATATTTTTGTTCCAGAATGAA-GAAAACAGGGTGCAACCAT
129 GTCGATATTTTTGGTCCAGAATGAAGGAAAACAGGGTGCAACCAT
2128954 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
2129019 CGGTACAAGTATACCGGTTTTGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAG-TT-TG
66 CGGTACAAGTATACCGGTTTTGAGAGAATATGTCTAAATAATGTGTCGACAC-TTTTAGTTTGTG
2129082 TC--TATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
130 TCGATATTTTTGGTCCAGAATGAA-GGAAAACAGGGTGCAACCAT
* * *
2129125 AAAGTGTTGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAACCCAAAAGTATAATGTAA
1 AAAGTGTCGATCC--------CAA------A----A---ACATCGAACCCAAAAGTATAATGTAA
*
2129190 TATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
45 TATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG-TTT-TGAGAGAATATGTCTAAATAAT
2129255 GTGTCGACACTTTGTAGTTTGTGTCGATA
108 GTGTCGACACTTT-TAGTTTGTGTCGATA
2129284 CTAATTTAAA
Statistics
Matches: 292, Mismatches: 5, Indels: 40
0.87 0.01 0.12
Matches are distributed among these distances:
169 19 0.07
171 35 0.12
172 115 0.39
173 8 0.03
179 2 0.01
185 1 0.00
189 1 0.00
192 62 0.21
193 6 0.02
194 35 0.12
195 2 0.01
196 4 0.01
198 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (173 bp):
AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAAGTATACCGGTTTTGAGAGAATATGTCTAAATAATGTGTCGACACTTTTAGTTTGTGT
CGATATTTTTGGTCCAGAATGAAGGAAAACAGGGTGCAACCAT
Found at i:2130749 original size:12 final size:12
Alignment explanation
Indices: 2130732--2130806 Score: 91
Period size: 12 Copynumber: 6.4 Consensus size: 12
2130722 GGTCGCAGAA
*
2130732 GATGAAGCTGAC
1 GATGAAGATGAC
2130744 GATG-A-ATGAC
1 GATGAAGATGAC
*
2130754 GATGATGATGAC
1 GATGAAGATGAC
*
2130766 GATGAAGCTGAC
1 GATGAAGATGAC
2130778 GATGAAGATGAC
1 GATGAAGATGAC
* *
2130790 GATGATGATGAT
1 GATGAAGATGAC
2130802 GATGA
1 GATGA
2130807 TGAAGATGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
10 8 0.15
11 1 0.02
12 45 0.83
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:2130762 original size:3 final size:3
Alignment explanation
Indices: 2130744--2130819 Score: 71
Period size: 3 Copynumber: 25.0 Consensus size: 3
2130734 TGAAGCTGAC
* * * * * * *
2130744 GAT GAAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAC
1 GAT G-AT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
2130790 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2130820 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:2130807 original size:12 final size:12
Alignment explanation
Indices: 2130740--2130819 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
2130730 AAGATGAAGC
2130740 TGACGATGA--A
1 TGACGATGATGA
2130750 TGACGATGATGA
1 TGACGATGATGA
* *
2130762 TGACGATGAAGC
1 TGACGATGATGA
*
2130774 TGACGATGAAGA
1 TGACGATGATGA
2130786 TGACGATGATGA
1 TGACGATGATGA
*
2130798 TGATGATGATGA
1 TGACGATGATGA
* *
2130810 AGATGATGAT
1 TGACGATGAT
2130820 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
10 9 0.15
12 53 0.85
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:2132022 original size:16 final size:16
Alignment explanation
Indices: 2131990--2132023 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2131980 TATCCACAAC
* *
2131990 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
2132006 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
2132022 AA
1 AA
2132024 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:2132401 original size:23 final size:21
Alignment explanation
Indices: 2132375--2132435 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
2132365 ATAGGTAAAA
2132375 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCG-TT
*
2132398 ATATAATGTAATAGGTATCGTT
1 ATAT-ATGTAATAGGTAGCGTT
*
2132420 -TATAAGTAATAGGTAG
1 ATATATGTAATAGGTAG
2132436 TGGTTATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 11 0.32
21 3 0.09
22 2 0.06
23 18 0.53
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (21 bp):
ATATATGTAATAGGTAGCGTT
Found at i:2132442 original size:20 final size:21
Alignment explanation
Indices: 2132380--2132442 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
2132370 TAAAAATATG
* *
2132380 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTATCG-GT-TATA
*
2132403 ATGTAATAGGTATCGTTTATA
1 ATGTAATAGGTATCGGTTATA
2132424 A-GTAATAGGTAGT-GGTTAT
1 ATGTAATAGGTA-TCGGTTAT
2132443 TGTAAAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.41
21 6 0.16
22 2 0.05
23 14 0.38
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGTAATAGGTATCGGTTATA
Found at i:2132473 original size:39 final size:41
Alignment explanation
Indices: 2132430--2132511 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
2132420 TATAAGTAAT
2132430 AGGTAGTGG-T-TATTGTAAAGTATCTATCCTTTTTATAAA
1 AGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAA
2132469 AGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAA
1 AGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAA
2132510 AG
1 AG
2132512 TGTATATACT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 9 0.22
40 1 0.02
41 31 0.76
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (41 bp):
AGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAA
Found at i:2133135 original size:183 final size:182
Alignment explanation
Indices: 2132859--2133353 Score: 882
Period size: 183 Copynumber: 2.7 Consensus size: 182
2132849 GCAATGCTAT
*
2132859 CGGTATAAATATACCAGTTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
1 CGGTATAAATATACCAG-TTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATAT
* *
2132924 TGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTATCGATACATTGTCAAAAAGTGTCGAC
65 TGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGAC
2132989 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
129 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
2133043 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
2133108 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
2133173 TTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
* * * *
2133226 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAACTATATCGACACATTCTAATATT
1 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
2133291 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCGA
2133354 TAATTTTAAG
Statistics
Matches: 301, Mismatches: 8, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
183 280 0.93
184 21 0.07
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:2136131 original size:177 final size:177
Alignment explanation
Indices: 2135835--2136346 Score: 783
Period size: 177 Copynumber: 2.8 Consensus size: 177
2135825 CCATATATAA
*
2135835 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATTGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
2135900 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTG
*
2135965 TGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT
131 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
2136012 AAAGTGTCGATCCCAAAAACATTGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATTGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
2136077 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTG
2136142 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
131 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
* *
2136189 AAAGTGTTGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAA
1 AAAGTGTCGATCC-----CAAAAA----C-AT----------T-GAACCCAAAAGTATAATGTAA
2136254 TATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
45 TATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
*
2136319 GTGTCGACACTTTGTAG-TTGTGTCGATA
110 GTGTCGACACTTTTTAGTTTGTGTCGATA
2136347 CTAATTTAAT
Statistics
Matches: 309, Mismatches: 5, Indels: 22
0.92 0.01 0.07
Matches are distributed among these distances:
177 187 0.61
182 5 0.02
186 1 0.00
187 2 0.01
197 12 0.04
198 102 0.33
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (177 bp):
AAAGTGTCGATCCCAAAAACATTGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTG
TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
Found at i:2137834 original size:12 final size:12
Alignment explanation
Indices: 2137817--2137898 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
2137807 GGTCGTAGAA
*
2137817 GATGAAGTTGAC
1 GATGAAGATGAC
2137829 GATGAAGATGAC
1 GATGAAGATGAC
*
2137841 GATGATGATGAC
1 GATGAAGATGAC
*
2137853 GATGAAGCTGAC
1 GATGAAGATGAC
*
2137865 GATGAAGA-GAT
1 GATGAAGATGAC
* *
2137876 GATGACGATGAT
1 GATGAAGATGAC
*
2137888 GATGATGATGA
1 GATGAAGATGA
2137899 TGAAGATGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
11 9 0.15
12 52 0.85
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:2137838 original size:6 final size:6
Alignment explanation
Indices: 2137814--2137898 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
2137804 AGCGGTCGTA
* * * * * *
2137814 GAAGAT GAAGTT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * *
2137862 GACGAT GAAGA- GATGAT GACGAT GATGAT GATGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
2137899 TGAAGATGAT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
5 4 0.06
6 59 0.94
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:2137849 original size:3 final size:3
Alignment explanation
Indices: 2137829--2137911 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
2137819 TGAAGTTGAC
* * * * * * *
2137829 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GA- GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
2137876 GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2137912 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:2137899 original size:12 final size:12
Alignment explanation
Indices: 2137817--2137911 Score: 90
Period size: 12 Copynumber: 8.2 Consensus size: 12
2137807 GGTCGTAGAA
* *
2137817 GATGAAGTTGAC
1 GATGAAGATGAT
*
2137829 GATGAAGATGAC
1 GATGAAGATGAT
* *
2137841 GATGATGATGAC
1 GATGAAGATGAT
* *
2137853 GATGAAGCTGAC
1 GATGAAGATGAT
2137865 GATGAAGA-GAT
1 GATGAAGATGAT
*
2137876 GATGACGATGAT
1 GATGAAGATGAT
2137888 GAT---GATGAT
1 GATGAAGATGAT
2137897 GATGAAGATGAT
1 GATGAAGATGAT
2137909 GAT
1 GAT
2137912 CCAAACAAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
9 9 0.12
11 9 0.12
12 54 0.75
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:2139108 original size:16 final size:16
Alignment explanation
Indices: 2139076--2139109 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2139066 TATCCACAAC
* *
2139076 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
2139092 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
2139108 AA
1 AA
2139110 TGAATAGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:2139462 original size:23 final size:23
Alignment explanation
Indices: 2139431--2139503 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2139421 ATAGGTAAAA
*
2139431 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2139454 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2139477 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2139500 ATAT
1 ATAT
2139504 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2140158 original size:183 final size:182
Alignment explanation
Indices: 2139883--2140376 Score: 889
Period size: 183 Copynumber: 2.7 Consensus size: 182
2139873 GCAATGCTAT
*
2139883 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
* *
2139948 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTATCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
2140013 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
2140066 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
2140131 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
2140196 TTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
* * * *
2140249 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAACTATATCGACACATTCTAATATT
1 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
2140314 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCGA
2140377 TAATTTTAAG
Statistics
Matches: 301, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
183 297 0.99
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAAACTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:2143284 original size:23 final size:22
Alignment explanation
Indices: 2143224--2143300 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
2143214 ATAGGTAAAA
2143224 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* * *
2143247 ATATATATAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCGCTT
* *
2143269 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGCGCTT
2143292 ATAT-TGTAA
1 ATATATGTAA
2143301 AGTATCTATC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 5 0.11
22 19 0.41
23 22 0.48
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:2143605 original size:25 final size:25
Alignment explanation
Indices: 2143567--2143616 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2143557 AAATCAATTA
*
2143567 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
2143592 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
2143617 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:2144010 original size:24 final size:25
Alignment explanation
Indices: 2143983--2144037 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
2143973 ATTTCAATTC
*
2143983 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
2144007 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
2144031 ATTTCAA
1 ATTTCAA
2144038 TATATTTCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 20 0.77
25 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:2144023 original size:18 final size:18
Alignment explanation
Indices: 2144002--2144038 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2143992 GTAATTGGAG
2144002 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2144020 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2144038 T
1 T
2144039 ATATTTCGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2144337 original size:39 final size:39
Alignment explanation
Indices: 2144294--2144380 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2144284 TCCGATGCTC
*
2144294 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
2144333 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
2144372 ATCAAAATC
1 ATCAAAATC
2144381 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:2144844 original size:22 final size:23
Alignment explanation
Indices: 2144789--2144860 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
2144779 ATAGGTAAAA
*
2144789 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2144812 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2144835 ATA-AATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2144857 ATAT
1 ATAT
2144861 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2145162 original size:23 final size:23
Alignment explanation
Indices: 2145131--2145203 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2145121 ATAGGTAAAA
*
2145131 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2145154 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2145177 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2145200 ATAT
1 ATAT
2145204 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2146482 original size:182 final size:181
Alignment explanation
Indices: 2146183--2146653 Score: 621
Period size: 182 Copynumber: 2.6 Consensus size: 181
2146173 GATCCAAATT
* * * **
2146183 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACC-AGTATTGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGA-TATCAAAATGAT
* * * * * * *
2146247 AAAACTGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATA-CAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
2146312 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
2146365 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
*
2146430 AAACCGGTAAAACGTTACAGTAATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
66 AAACCGGTAAAACGATACAG--ATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* ** *
2146494 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
2146547 AAAAATATATCGATCCACAACGATATAACAGGT-AAAA-ATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGAT-
*
2146610 AAAACCGGTAAAATGATATCAG--ATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATA-CAGATATATTGAAAGTGTCGATACTTT
2146654 CGTAAGTACG
Statistics
Matches: 257, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
178 22 0.09
180 23 0.09
181 22 0.09
182 168 0.65
183 22 0.09
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGATATCAAAATGATA
AAACCGGTAAAACGATACAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:2146589 original size:18 final size:18
Alignment explanation
Indices: 2146577--2146627 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 18
2146567 CGATATAACA
2146577 GGTAAAAATGATAAAACC
1 GGTAAAAATGATAAAACC
2146595 GGTATCAAAATGATAAAAACC
1 GGTA--AAAATGAT-AAAACC
2146616 GGT-AAAATGATA
1 GGTAAAAATGATA
2146628 TCAGATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
20 8 0.27
21 9 0.30
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.20
Consensus pattern (18 bp):
GGTAAAAATGATAAAACC
Found at i:2146606 original size:20 final size:21
Alignment explanation
Indices: 2146581--2146619 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2146571 ATAACAGGTA
2146581 AAAATGAT-AAAACCGGTATC
1 AAAATGATAAAAACCGGTATC
2146601 AAAATGATAAAAACCGGTA
1 AAAATGATAAAAACCGGTA
2146620 AAATGATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (21 bp):
AAAATGATAAAAACCGGTATC
Found at i:2148869 original size:21 final size:21
Alignment explanation
Indices: 2148843--2148907 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2148833 AAGACAATCA
*
2148843 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
2148864 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2148885 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2148906 AG
1 AG
2148908 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2148983 original size:33 final size:33
Alignment explanation
Indices: 2148936--2149002 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2148926 AGGAAAAATA
* *
2148936 GATGGAGTGGTGAAAGAAGTAGAGGTGTTGAGG
1 GATGAAGTGGTGAAAGAAGTAGAGGTGTTAAGG
* *
2148969 GATGAAGTGGTGAAAGAAGTTGGGGTGTTAAGG
1 GATGAAGTGGTGAAAGAAGTAGAGGTGTTAAGG
2149002 G
1 G
2149003 TGATATTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (33 bp):
GATGAAGTGGTGAAAGAAGTAGAGGTGTTAAGG
Found at i:2150818 original size:19 final size:19
Alignment explanation
Indices: 2150794--2150842 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2150784 AATGTAGGGT
2150794 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2150813 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
2150832 TAATTTTGTAT
1 TAATTTTGTAT
2150843 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2150853 original size:18 final size:19
Alignment explanation
Indices: 2150794--2150854 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
2150784 AATGTAGGGT
* *
2150794 TAATTTTGTATAAGATTTA
1 TAATTTTGTATATGATATA
*
2150813 TAATTTTGTATATGATTTA
1 TAATTTTGTATATGATATA
*
2150832 TAATTTTGTATGTGA-ATA
1 TAATTTTGTATATGATATA
2150850 TAATT
1 TAATT
2150855 ATGAATGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATATGATATA
Found at i:2151304 original size:200 final size:200
Alignment explanation
Indices: 2150961--2151937 Score: 1674
Period size: 200 Copynumber: 4.9 Consensus size: 200
2150951 CAATATGGTC
* *
2150961 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAACTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
2151026 CCAAAAGTATGATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2151091 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGATTGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
2151156 TGGAA
196 TGGAA
*
2151161 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATTGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
2151226 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTAACAAGTATACCGGTTTTATGAG
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT-ACAAGTATACCGGTTTTATGAG
2151290 AGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
130 AGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
**
2151355 ATGGCC
195 ATGGAA
2151361 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
2151426 CTAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
2151491 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCTAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
**
2151556 TGGCC
196 TGGAA
2151561 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* * *
2151626 CCAAAAATATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
2151691 TAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
2151756 TGGAA
196 TGGAA
** *
2151761 AACAGACTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
2151826 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
2151891 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
2151938 CTAATTTAAA
Statistics
Matches: 740, Mismatches: 32, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
199 2 0.00
200 729 0.99
201 9 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:2153415 original size:6 final size:6
Alignment explanation
Indices: 2153404--2153491 Score: 68
Period size: 6 Copynumber: 14.7 Consensus size: 6
2153394 CAAGCGGTCA
* * * * *
2153404 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
2153452 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
2153492 TCCAAACAAG
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:2153441 original size:3 final size:3
Alignment explanation
Indices: 2153421--2153492 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
2153411 TGAAGCTGAC
* * * * * * *
2153421 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
2153469 GAC GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
2153493 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:2153456 original size:36 final size:36
Alignment explanation
Indices: 2153404--2153485 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
2153394 CAAGCGGTCA
*
2153404 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
* *
2153440 ATGACGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
*
2153476 ATGATGATGA
1 ATGAAGATGA
2153486 TGATGATCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:2153492 original size:12 final size:12
Alignment explanation
Indices: 2153404--2153491 Score: 95
Period size: 12 Copynumber: 7.3 Consensus size: 12
2153394 CAAGCGGTCA
*
2153404 ATGAAGATGAAG
1 ATGACGATGAAG
*
2153416 CTGACGATGAAG
1 ATGACGATGAAG
*
2153428 ATGACGATGATG
1 ATGACGATGAAG
2153440 ATGACGATGAAG
1 ATGACGATGAAG
*
2153452 CTGACGATGAAG
1 ATGACGATGAAG
* * *
2153464 ATGATGACGATG
1 ATGACGATGAAG
* *
2153476 ATGATGATGATG
1 ATGACGATGAAG
2153488 ATGA
1 ATGA
2153492 TCCAAACAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:2156738 original size:183 final size:183
Alignment explanation
Indices: 2154702--2156736 Score: 3765
Period size: 183 Copynumber: 11.1 Consensus size: 183
2154692 CGAAGTTTTC
* * * * *
2154702 ACACTTTTTAATATTGTGCCTGTACTTTATGTCCAGAATGGAAGAGAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * *
2154767 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
2154830 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
2154886 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAAAAAAAGGTGTCGATA-CATTG
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
2154950 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
2155015 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
2155069 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2155134 C-AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
2155198 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
2155251 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2155316 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
2155381 AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
2155434 ACACTTTTTAATATTGTGTCGGAACTTTTTATCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2155499 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* * *
2155564 AACCGGTATAAATATACCGATTTTATAAGCGAATAGGTTTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2155617 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2155682 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
2155747 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2155800 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2155865 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
2155930 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
2155983 ACACTTTTTAATATTGTGTCGGAACTTTTTATCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
2156048 CAAAAAGTGTCGGCATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
2156113 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2156166 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2156231 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
2156296 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2156349 ACACTTTTTAATATTATGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
2156414 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
2156479 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
2156532 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
2156596 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
2156661 TAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
2156715 ACACTTTTTAATATTGTGTCGG
1 ACACTTTTTAATATTGTGTCGG
2156737 TAATTTTAAG
Statistics
Matches: 1805, Mismatches: 40, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
182 186 0.10
183 1548 0.86
184 68 0.04
186 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:2159615 original size:23 final size:23
Alignment explanation
Indices: 2159584--2159656 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2159574 ATAGGTAAAA
*
2159584 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2159607 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2159630 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2159653 ATAT
1 ATAT
2159657 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2160102 original size:23 final size:23
Alignment explanation
Indices: 2160071--2160143 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2160061 ATAGGTAAAA
* *
2160071 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
2160094 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
2160117 ATATAATGTAATAAGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
2160140 ATAT
1 ATAT
2160144 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:2160277 original size:488 final size:489
Alignment explanation
Indices: 2159238--2161057 Score: 3225
Period size: 488 Copynumber: 3.7 Consensus size: 489
2159228 AGGTCTGTAC
2159238 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
2159303 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
2159368 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
2159433 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
2159498 TAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
2159563 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
* * *
2159628 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATA
391 TTATATAATGTAATAAGTAGTGTTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
2159693 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
2159727 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT-TTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
2159791 GTTATGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
2159856 TTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
2159921 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
2159986 AAATTGAAACATAAATTACATAACTTT-AAAAAAGGATCGATCATTTTTATAAAAAGTATAAACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
2160050 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
*
2160115 TTATATAATGTAATAAGTAGTGTTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATA
391 TTATATAATGTAATAAGTAGTGTTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
2160180 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
2160214 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
2160279 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
2160344 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
2160409 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
2160474 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
2160539 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTAATAGGTAGCG
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGCG
2160603 TTAATATAATATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCT
390 -T--T-T-ATAT-A-A--T---G--TA-ATAA-G---TA-GT-GT--TTATATTGTAAAGTATCT
* *
2160668 ATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAATATTAATTTAAGGTT
432 ATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
2160726 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
2160791 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
2160856 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
2160921 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
2160985 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAGAC
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT-AAAAAGTATAGAC
2161050 ACTTTCAA
325 ACTTTCAA
2161058 CATATTATAA
Statistics
Matches: 1281, Mismatches: 23, Indels: 31
0.96 0.02 0.02
Matches are distributed among these distances:
487 250 0.20
488 452 0.35
489 152 0.12
490 1 0.00
492 1 0.00
493 1 0.00
494 4 0.00
495 1 0.00
496 1 0.00
498 1 0.00
501 1 0.00
503 2 0.00
504 4 0.00
505 1 0.00
508 2 0.00
509 2 0.00
510 2 0.00
511 53 0.04
512 350 0.27
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAAGTAGTGTTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:2160655 original size:23 final size:23
Alignment explanation
Indices: 2160559--2160646 Score: 149
Period size: 23 Copynumber: 3.8 Consensus size: 23
2160549 AATAGGTAAA
*
2160559 AATATGATGTAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
2160582 AATATAATGTAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
*
2160605 AATATAATATAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
*
2160628 TATATAATGTAATAGGTAG
1 AATATAATGTAATAGGTAG
2160647 TGCTTATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (23 bp):
AATATAATGTAATAGGTAGCGTT
Found at i:2161043 original size:512 final size:512
Alignment explanation
Indices: 2160070--2161057 Score: 1872
Period size: 512 Copynumber: 1.9 Consensus size: 512
2160060 AATAGGTAAA
* *
2160070 AATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAGTAG
1 AATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAATAAGTAG
* *
2160135 TGTTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
66 TGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
2160200 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
131 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
2160265 GATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACA
196 GATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACA
2160330 TATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC
261 TATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC
2160395 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
326 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
2160460 AAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT
391 AAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT
2160525 AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTT
456 AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTT
*
2160582 AATATAATGTAATAGGTAGCG-TTAATATAATATAATAGGTAGCGTTTATATAATGTAATAGGTA
1 AATATAATGTAATAGGTAGCGCTT-ATATAATATAATAGGTAGCGTTTATATAATGTAATAAGTA
*
2160646 GTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAA
65 GTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAA
*
2160711 TATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAA
130 CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAA
2160776 TGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTAC
195 TGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTAC
2160841 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
260 ATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
2160906 CAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
325 CAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
*
2160971 GAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTA
390 GAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTA
2161035 TAAAAAAGTATAGACACTTTCAA
455 T-AAAAAGTATAGACACTTTCAA
2161058 CATATTATAA
Statistics
Matches: 466, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
511 55 0.12
512 411 0.88
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (512 bp):
AATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAATAAGTAG
TGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
GATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACA
TATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC
AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
AAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTAT
AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTT
Found at i:2162394 original size:14 final size:15
Alignment explanation
Indices: 2162377--2162405 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2162367 TACATGATAT
2162377 GCAT-AAACATAAGA
1 GCATAAAACATAAGA
2162391 GCATAAAACATAAGA
1 GCATAAAACATAAGA
2162406 TATATGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
GCATAAAACATAAGA
Found at i:2162732 original size:22 final size:21
Alignment explanation
Indices: 2162678--2162741 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
2162668 AGTCGAGGGT
*
2162678 TTCATAGGTCCTTTGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
2162699 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
2162721 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
2162742 ATTTCATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:2168377 original size:14 final size:15
Alignment explanation
Indices: 2168360--2168388 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2168350 TACATGATAT
2168360 GCAT-AAACATAAGA
1 GCATAAAACATAAGA
2168374 GCATAAAACATAAGA
1 GCATAAAACATAAGA
2168389 TATGTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
GCATAAAACATAAGA
Found at i:2168715 original size:22 final size:21
Alignment explanation
Indices: 2168661--2168724 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
2168651 AGTCGAGGGT
*
2168661 TTCATAGGTCCTTTGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
2168682 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
2168704 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
2168725 ATTTCATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:2171979 original size:24 final size:24
Alignment explanation
Indices: 2171930--2171985 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
2171920 TGAAGAGGAT
2171930 GAAGAAGAGGAAGAAAAGAAAGAG
1 GAAGAAGAGGAAGAAAAGAAAGAG
* **
2171954 GAAGAGGAGGAAGAACCTGAAA-AG
1 GAAGAAGAGGAAGAA-AAGAAAGAG
2171978 GAAGAAGA
1 GAAGAAGA
2171986 ACCCGAGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.38, T:0.02
Consensus pattern (24 bp):
GAAGAAGAGGAAGAAAAGAAAGAG
Found at i:2172570 original size:34 final size:34
Alignment explanation
Indices: 2172531--2172598 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
2172521 ATTAAATGAA
* *
2172531 AAAGAAAACAATCCACCGCTGGACCCTTGTGCCC
1 AAAGAAAACAATCCACCACTGGACACTTGTGCCC
2172565 AAAGAAAACAATCCACCACTGGACACTTGTGCCC
1 AAAGAAAACAATCCACCACTGGACACTTGTGCCC
2172599 CACCAACCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.34, G:0.16, T:0.15
Consensus pattern (34 bp):
AAAGAAAACAATCCACCACTGGACACTTGTGCCC
Found at i:2192528 original size:16 final size:16
Alignment explanation
Indices: 2192507--2192554 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
2192497 GCACTAGTAA
2192507 AAGATAGTGGATAAGT
1 AAGATAGTGGATAAGT
2192523 AAGATAGTGGATAAGT
1 AAGATAGTGGATAAGT
*
2192539 AAAATAGTGGATAAGT
1 AAGATAGTGGATAAGT
2192555 GTCTCGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (16 bp):
AAGATAGTGGATAAGT
Found at i:2199806 original size:2 final size:2
Alignment explanation
Indices: 2199782--2199829 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
2199772 ATATTCTCAA
* *
2199782 AT AT -T AT AT -T AT TT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2199822 AT AT AT AT
1 AT AT AT AT
2199830 TTGAAGTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:2202218 original size:22 final size:23
Alignment explanation
Indices: 2202163--2202208 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2202153 AAAGTATTTA
*
2202163 AAATCAAAATATATTTTATAATT
1 AAATAAAAATATATTTTATAATT
*
2202186 AAATAAAAATATGTTTTA-AATT
1 AAATAAAAATATATTTTATAATT
2202208 A
1 A
2202209 TTAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AAATAAAAATATATTTTATAATT
Found at i:2202771 original size:10 final size:11
Alignment explanation
Indices: 2202749--2202791 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
2202739 AAATATAAAA
2202749 TATTATAATTT
1 TATTATAATTT
2202760 TATTATAA-TT
1 TATTATAATTT
2202770 TATTATAATTT
1 TATTATAATTT
*
2202781 TATTACAATTT
1 TATTATAATTT
2202792 AATGTTACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATAATTT
Found at i:2202773 original size:21 final size:21
Alignment explanation
Indices: 2202749--2202792 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2202739 AAATATAAAA
*
2202749 TATTATAATTTTATTATAATT
1 TATTATAATTTTATTACAATT
2202770 TATTATAATTTTATTACAATT
1 TATTATAATTTTATTACAATT
2202791 TA
1 TA
2202793 ATGTTACTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATAATTTTATTACAATT
Found at i:2205914 original size:37 final size:36
Alignment explanation
Indices: 2205839--2205914 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
2205829 TTTTTATATT
*
2205839 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
2205875 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
2205912 TTT
1 TTT
2205915 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:2206096 original size:20 final size:20
Alignment explanation
Indices: 2206060--2206097 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2206050 ATCCTATTCC
**
2206060 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2206080 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2206098 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2209570 original size:3 final size:3
Alignment explanation
Indices: 2209562--2209638 Score: 95
Period size: 3 Copynumber: 25.0 Consensus size: 3
2209552 CGGGTCTTTT
2209562 TTA TTA TTA TT- TATA TATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
2209609 TTA TTTA TTA TTA TTA -TA TTA TTA ATA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
2209639 CATTTTACAT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
2 3 0.04
3 54 0.81
4 9 0.13
5 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2209650 original size:14 final size:14
Alignment explanation
Indices: 2209584--2209651 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
2209574 ATATATATTT
* *
2209584 ATTATTATTATTATT
1 ATTATTAATATTA-C
*
2209599 ATTATTATTATTA-
1 ATTATTAATATTAC
* * *
2209612 TTTATTATTATTAT
1 ATTATTAATATTAC
2209626 ATTATTAATATTAC
1 ATTATTAATATTAC
2209640 ATT-TTACATATT
1 ATTATTA-ATATT
2209652 TTTGTAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
13 15 0.32
14 19 0.40
15 13 0.28
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTAATATTAC
Done.