Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 177 of 202
Found at i:54974651 original size:3 final size:3
Alignment explanation
Indices: 54974643--54974677 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
54974633 TCTTAATACT
*
54974643 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
54974678 TAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:54974682 original size:3 final size:3
Alignment explanation
Indices: 54974670--54974758 Score: 151
Period size: 3 Copynumber: 29.3 Consensus size: 3
54974660 CAACAACAAC
*
54974670 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
54974718 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AACT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
54974759 CTATTATTTT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
3 78 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:54974829 original size:19 final size:21
Alignment explanation
Indices: 54974805--54974843 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
54974795 CTAAAACAAA
*
54974805 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
54974824 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
54974844 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:54974884 original size:10 final size:11
Alignment explanation
Indices: 54974867--54974895 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
54974857 AAAAAAAGAC
54974867 CTTCTTTTTCT
1 CTTCTTTTTCT
54974878 C-TCTTTTTCT
1 CTTCTTTTTCT
54974888 CTTCTTTT
1 CTTCTTTT
54974896 CCGCAGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:54975019 original size:27 final size:27
Alignment explanation
Indices: 54974989--54975073 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
54974979 CCAATCAGTA
*
54974989 TGGCACCATTGGTGCTGCCAATGGCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* **
54975016 TGGCACCATTGGTGCCACCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* *
54975043 TGGCACCTTTGGTGCCGCCAATGCCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
54975070 TGGC
1 TGGC
54975074 GTGACCAAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.27
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCAT
Found at i:54975156 original size:27 final size:28
Alignment explanation
Indices: 54975121--54975190 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
54975111 CAGTTTTTTT
54975121 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAACTTA
54975148 TATATATTTTGGTAAATAAAAAAACGTTA
1 TATATATTTTGGTAAATAAAAAAAC-TTA
*
54975177 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
54975191 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 24 0.60
28 11 0.28
29 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAACTTA
Found at i:54977641 original size:31 final size:29
Alignment explanation
Indices: 54977606--54977677 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 29
54977596 TTTTTGTACC
*
54977606 AAAATGAAAGCGATCC-AAAAGTTGGGTGACT
1 AAAATGAAAGC--TCCTAAAAGTTGAGTGA-T
54977637 AAAATGAAAGCTCCTTAAAAGTTGAGTGAT
1 AAAATGAAAGCTCC-TAAAAGTTGAGTGAT
54977667 AAAATTGAAAG
1 AAAA-TGAAAG
54977678 GATTTTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 3 0.08
30 5 0.14
31 29 0.78
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (29 bp):
AAAATGAAAGCTCCTAAAAGTTGAGTGAT
Found at i:54978673 original size:3 final size:3
Alignment explanation
Indices: 54978665--54978692 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
54978655 GACTACAATC
54978665 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
54978693 GACGGGTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:54986128 original size:17 final size:18
Alignment explanation
Indices: 54986106--54986141 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
54986096 CCTCAATAAG
54986106 CATTTATA-AAAATCAAA
1 CATTTATATAAAATCAAA
*
54986123 CATTTATATAAACTCAAA
1 CATTTATATAAAATCAAA
54986141 C
1 C
54986142 CTTTCCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (18 bp):
CATTTATATAAAATCAAA
Found at i:54986407 original size:42 final size:41
Alignment explanation
Indices: 54986361--54986484 Score: 169
Period size: 42 Copynumber: 3.0 Consensus size: 41
54986351 ATGCTATCAT
54986361 ATATCGATGCCAATAG-CCCAGCTATGGTCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCCCAGC-ATGGTCTTACACGAATCTC
* * *
54986403 ATATCCATGCCAATGTCCCAAACATGGTCTTACATGAATCTC
1 ATATCGATGCCAATGTCCC-AGCATGGTCTTACACGAATCTC
*
54986445 ATATCGGTGCCAATGTCCCAGACATGGTCTTACACGAATC
1 ATATCGATGCCAATGTCCCAG-CATGGTCTTACACGAATC
54986485 ACATCTCAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 68 0.94
43 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (41 bp):
ATATCGATGCCAATGTCCCAGCATGGTCTTACACGAATCTC
Found at i:54991890 original size:29 final size:32
Alignment explanation
Indices: 54991848--54991914 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 32
54991838 CAATAAAAAT
* *
54991848 AAAATTTATATTTAAAATATA-T-ATTA-ATG
1 AAAATTCATATTTAAAATAAATTAATTATATG
* *
54991877 AAAATTCATTTTTATAATAAATTAATTATATG
1 AAAATTCATATTTAAAATAAATTAATTATATG
54991909 AAAATT
1 AAAATT
54991915 AAATATACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 17 0.55
30 1 0.03
31 4 0.13
32 9 0.29
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (32 bp):
AAAATTCATATTTAAAATAAATTAATTATATG
Found at i:54995764 original size:42 final size:42
Alignment explanation
Indices: 54995701--54995870 Score: 193
Period size: 42 Copynumber: 4.0 Consensus size: 42
54995691 TGTAATCAAC
*
54995701 TATA-GATGCCACTGTCCCAGACAGGGTCTTACACAAAATCA
1 TATACGATGCCAATGTCCCAGACAGGGTCTTACACAAAATCA
* **
54995742 TATACAATGCCAATGTCCCAGACATAGTCTTACACAAAATCA
1 TATACGATGCCAATGTCCCAGACAGGGTCTTACACAAAATCA
* *
54995784 TATACGATGTCAATGTCCCAGACATGGTCTTACACATAAATC-
1 TATACGATGCCAATGTCCCAGACAGGGTCTTACACA-AAATCA
* * * *
54995826 TCAAATCGATGCCAACGTCCCAGAC-GTGGTCTTATACGAAATCA
1 T-ATA-CGATGCCAATGTCCCAGACAG-GGTCTTACACAAAATCA
54995870 T
1 T
54995871 GTACTGCCAT
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.04
42 67 0.61
43 12 0.11
44 27 0.25
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TATACGATGCCAATGTCCCAGACAGGGTCTTACACAAAATCA
Found at i:54995825 original size:85 final size:83
Alignment explanation
Indices: 54995650--54995870 Score: 246
Period size: 85 Copynumber: 2.6 Consensus size: 83
54995640 GATTAGCTCA
* * * * * *
54995650 AAAAGCTCGTACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAACTATAGATGCCACTG
1 AAAATCTCATACAATGCCAACGTCCCAGACGTGGTCTTACACGAAATC-A-TATAGATGCCAATG
54995715 TCCCAGACAGGGTCTTACAC
64 TCCCAGACAGGGTCTTACAC
* * * * *
54995735 AAAATCAT-ATACAATGCCAATGTCCCAGACATAGTCTTACACAAAATCATATACGATGTCAATG
1 AAAATC-TCATACAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCATATA-GATGCCAATG
*
54995799 TCCCAGACATGGTCTTACAC
64 TCCCAGACAGGGTCTTACAC
* * *
54995819 ATAAATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTATACGAAATCAT
1 A-AAATCTCATA-CAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAT
54995871 GTACTGCCAT
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
83 4 0.04
84 30 0.27
85 44 0.39
86 34 0.30
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (83 bp):
AAAATCTCATACAATGCCAACGTCCCAGACGTGGTCTTACACGAAATCATATAGATGCCAATGTC
CCAGACAGGGTCTTACAC
Found at i:54997335 original size:31 final size:31
Alignment explanation
Indices: 54997286--54997348 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
54997276 TCTTAGATAA
54997286 TTTTAAAGAGTTTTTATTAAGATTCAATTAC
1 TTTTAAAGAGTTTTTATTAAGATTCAATTAC
*
54997317 TTTTGAAAGAG-TTTTATTAGGATTCAATTAC
1 TTTT-AAAGAGTTTTTATTAAGATTCAATTAC
54997348 T
1 T
54997349 CTTGTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTTAAAGAGTTTTTATTAAGATTCAATTAC
Found at i:55000643 original size:20 final size:20
Alignment explanation
Indices: 55000618--55000671 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
55000608 GGCGTGTGGG
*
55000618 GAAGCCACATGGCCATGTGT
1 GAAGCCACACGGCCATGTGT
55000638 GAAGCCACACGGCCATGTGT
1 GAAGCCACACGGCCATGTGT
55000658 GAAGCCACACGGCC
1 GAAGCCACACGGCC
55000672 TGGGCTATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.30, T:0.13
Consensus pattern (20 bp):
GAAGCCACACGGCCATGTGT
Found at i:55001053 original size:18 final size:19
Alignment explanation
Indices: 55001030--55001065 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
55001020 TATTAGTAAT
55001030 CAGTGACAATA-CAACATA
1 CAGTGACAATATCAACATA
*
55001048 CAGTGACAGTATCAACAT
1 CAGTGACAATATCAACAT
55001066 GTTATCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.19
Consensus pattern (19 bp):
CAGTGACAATATCAACATA
Found at i:55002740 original size:2 final size:2
Alignment explanation
Indices: 55002733--55002780 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
55002723 AGCCTTCAAC
55002733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55002775 AT AT AT
1 AT AT AT
55002781 TCCTTTTCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55005076 original size:18 final size:17
Alignment explanation
Indices: 55005055--55005089 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55005045 TTATTATTAA
*
55005055 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
55005073 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
55005090 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:55005143 original size:157 final size:157
Alignment explanation
Indices: 55004942--55005258 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
55004932 TAGAATACTC
*
55004942 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
55005007 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
55005072 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
55005099 TTAGCAAAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
55005164 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
55005229 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
55005256 TTA
1 TTA
55005259 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:55005229 original size:16 final size:16
Alignment explanation
Indices: 55005192--55005233 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55005182 TTAATCATAT
*
55005192 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
55005208 TT-AAATATATTATAA
1 TTAAAATATATTATAA
55005223 TTAAAATATAT
1 TTAAAATATAT
55005234 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:55005240 original size:14 final size:15
Alignment explanation
Indices: 55005201--55005242 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55005191 TTTAAACATA
*
55005201 ATTATTATTAAATAT
1 ATTATAATTAAATAT
55005216 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
55005230 A-TATAATTTAATA
1 ATTATAATTAAATA
55005243 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:55005342 original size:157 final size:154
Alignment explanation
Indices: 55004997--55005343 Score: 342
Period size: 157 Copynumber: 2.2 Consensus size: 154
55004987 AAATTTTAAT
* *
55004997 AAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATT
1 AAGATAATTAATAT-AATAAT-AATATTTTAATCATATTTAAACATAATTATTATTAAATATATT
* * * * ** *
55005062 TTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAAAAATTTGTTTTGGTAAATTAT
64 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAAAAATATGATTTACTAAATTAA
* * * * * * * *
55005127 TATTGTTATTGTTATTTAAATTTTAAT
129 TATTGATACTATAAATGAAAATTT-AG
* *
55005154 AAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATT
1 AAGATAATTAATAT-AATAAT-AATATTTTAATCATATTTAAACATAATTATTATTAAATATATT
* ***
55005219 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA
64 ATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--AAAATATG-ATTTACT-AAA
55005284 TCATAATATATGATACTATAAATGAAAATTT-G
125 T--TAATAT-TGATACTATAAATGAAAATTTAG
*
55005316 AA-ATAATTAATAT-ATCAT-ATATTTTAAT
1 AAGATAATTAATATAATAATAATATTTTAAT
55005344 TAAAATATAT
Statistics
Matches: 159, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
157 112 0.70
159 8 0.05
160 4 0.03
161 14 0.09
162 2 0.01
163 5 0.03
164 14 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (154 bp):
AAGATAATTAATATAATAATAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTAT
AATTAAAATATATAATTTAATAAAATTCTTAATAATTAACAAAAATATGATTTACTAAATTAATA
TTGATACTATAAATGAAAATTTAG
Found at i:55005454 original size:24 final size:25
Alignment explanation
Indices: 55005408--55005455 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
55005398 TATGAATTTG
55005408 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
55005434 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
55005456 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:55005459 original size:92 final size:92
Alignment explanation
Indices: 55005363--55005591 Score: 229
Period size: 92 Copynumber: 2.5 Consensus size: 92
55005353 TGATTTAATA
* * *
55005363 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
55005425 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
55005455 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
55005520 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* *
55005545 ATAATTTCATAAAAA-TCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCA-AAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
55005592 CTAAAATCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
90 2 0.02
91 21 0.18
92 85 0.73
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:55012279 original size:22 final size:22
Alignment explanation
Indices: 55012254--55012297 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
55012244 GTCTTATCAT
55012254 TTTTAATTTT-TTTAAATATTTA
1 TTTT-ATTTTATTTAAATATTTA
*
55012276 TTTTATTTTATTTTAATATTTA
1 TTTTATTTTATTTAAATATTTA
55012298 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATTTTATTTAAATATTTA
Found at i:55012643 original size:12 final size:13
Alignment explanation
Indices: 55012612--55012653 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
55012602 ACCACTTTAG
*
55012612 TTATTAGTTTTGAT
1 TTATTA-TTATGAT
55012626 TTATTATTATGA-
1 TTATTATTATGAT
*
55012638 TTATTATTATTAT
1 TTATTATTATGAT
55012651 TTA
1 TTA
55012654 ATGCTTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 8 0.32
14 6 0.24
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
TTATTATTATGAT
Found at i:55014777 original size:2 final size:2
Alignment explanation
Indices: 55014770--55014803 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
55014760 TGTCTCTTTT
55014770 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55014804 TACACTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:55016254 original size:2 final size:2
Alignment explanation
Indices: 55016243--55016275 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
55016233 GTCTAACTAT
*
55016243 TA TA -A TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55016276 AAAAAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:55027628 original size:7 final size:6
Alignment explanation
Indices: 55027595--55027627 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
55027585 TTTTGGATTT
55027595 TTAGGG TTAGGG TTAGGG TTAGGG TTTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TT
55027628 TTTAGGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (6 bp):
TTAGGG
Found at i:55028081 original size:125 final size:124
Alignment explanation
Indices: 55027815--55028101 Score: 448
Period size: 124 Copynumber: 2.3 Consensus size: 124
55027805 ATTTATTAAG
* * *
55027815 GAAATCGCTCCCATGTGGACGCGCTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
*
55027880 GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTAAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* * * * * *
55027939 AAAATCGCTTCCACGTGGCCACACTTTTGCTACAGTAGATCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
* *
55028004 GTTTCTAAGCAAATAGTATAAAAAAGGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTAAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
*
55028064 GAAATCGCTCCCACGTGGATGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
55028102 CATGTTTGGT
Statistics
Matches: 144, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
124 74 0.51
125 70 0.49
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTAAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:55031256 original size:49 final size:48
Alignment explanation
Indices: 55031201--55031326 Score: 207
Period size: 48 Copynumber: 2.6 Consensus size: 48
55031191 TAAGAATATT
* *
55031201 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAA-ATTCAAAATA
* *
55031250 AACTATTTTGTATTTTATTACATTAAATAATATCAAAAATTCAAAATG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAAATTCAAAATA
55031298 AACTATTTTGTATTTTATTACATCAAATA
1 AACTATTTTGTATTTTATTACATCAAATA
55031327 TAAACTATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
48 37 0.51
49 36 0.49
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (48 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAAATTCAAAATA
Found at i:55031311 original size:48 final size:49
Alignment explanation
Indices: 55031201--55031498 Score: 260
Period size: 49 Copynumber: 6.5 Consensus size: 49
55031191 TAAGAATATT
* *
55031201 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
55031250 AACTATTTTGTATTTTATTACATTAAATAATATCAAAA-ATTCAAAATG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* * *
55031298 AACTATTTTGTATTTTATTACATC--A-AATAT-AAACTATT----TTG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* * ** *** * *
55031339 TA-TTTTATTAAATGAAATAATATC-AA-AATATTCAAAATA---------
1 AACTATT-TTGTATTTTATTACATCAAATAATA-TCAAAATATTCAAAATA
* *
55031378 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
55031427 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATG
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
55031476 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
55031499 TAATATAAAC
Statistics
Matches: 203, Mismatches: 29, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
39 10 0.05
40 16 0.08
41 17 0.08
42 5 0.02
43 1 0.00
44 8 0.04
45 8 0.04
46 1 0.00
48 32 0.16
49 105 0.52
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:55031333 original size:31 final size:31
Alignment explanation
Indices: 55031290--55031357 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
55031280 TATCAAAAAT
* *
55031290 TCAAA-ATGAACTATTTTGTATTTTATTACA
1 TCAAATATAAACTATTTTGTATTTTATTAAA
55031320 TCAAATATAAACTATTTTGTATTTTATTAAA
1 TCAAATATAAACTATTTTGTATTTTATTAAA
*
55031351 TGAAATA
1 TCAAATA
55031358 ATATCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (31 bp):
TCAAATATAAACTATTTTGTATTTTATTAAA
Found at i:55031410 original size:128 final size:128
Alignment explanation
Indices: 55031195--55031582 Score: 504
Period size: 128 Copynumber: 3.0 Consensus size: 128
55031185 TATTATTAAG
55031195 AATATTAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
1 AATA-TAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
* * *
55031260 TATTTTATTACATTAAATAATATCAAAA-ATTCAAAATGAACTATTTTGTATTTTATTACATCA
65 TATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCA
55031323 AATATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
1 AATAT-AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTG
55031388 TATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATC-
65 TATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCA
**** * * * * * ***
55031451 AA-ATAA-TA-TCAAAATATTCA--AAATGAACTATTTTGTATTTTATTACATTAATATAAACTA
1 AATATAACTATTTTGTAT-TTTATTAAATGAAATAATAT-CAAAATATT-CA--AA-ATAAACTA
*
55031511 TTTTTTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT-TTTTATTAC
60 TTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTAC
55031575 ATCA
125 ATCA
55031579 AATA
1 AATA
55031583 ATATCAAAAT
Statistics
Matches: 234, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
123 11 0.05
124 8 0.03
125 7 0.03
126 2 0.01
127 17 0.07
128 155 0.66
129 34 0.15
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (128 bp):
AATATAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT
ATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCA
Found at i:55031419 original size:177 final size:177
Alignment explanation
Indices: 55031201--55031693 Score: 882
Period size: 177 Copynumber: 2.8 Consensus size: 177
55031191 TAAGAATATT
55031201 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
* *
55031266 ATTACATTAAATAATATCAAAA-ATTCAAAATGAACTATTTTGTATTTTATTACATCAAATATAA
66 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACAT-TAATATAA
55031330 ACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
130 ACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
55031378 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
55031443 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
66 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
*
55031508 CTATTTTTTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
131 CTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
* * *
55031555 AACTATTTTGT-TTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTG
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
* *
55031619 ATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATTAATACAAA
66 ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
*
55031684 CTACTTTGTA
131 CTATTTTGTA
55031694 CAAATAAATT
Statistics
Matches: 305, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
176 121 0.40
177 151 0.50
178 33 0.11
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (177 bp):
AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
ATTACATCAAATAATATCAAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAA
CTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
Found at i:55031498 original size:49 final size:49
Alignment explanation
Indices: 55031320--55031495 Score: 316
Period size: 49 Copynumber: 3.6 Consensus size: 49
55031310 TTTTATTACA
55031320 TCAAATATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATAT
1 TCAAA-ATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATAT
55031370 TCAAAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATAT
1 TCAAAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATAT
* *
55031419 TCAAAATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATAT
1 TCAAAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATAT
*
55031468 TCAAAATGAACTATTTTGTATTTTATTA
1 TCAAAATAAACTATTTTGTATTTTATTA
55031496 CATTAATATA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
49 118 0.96
50 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (49 bp):
TCAAAATAAACTATTTTGTATTTTATTAAATGAAATAATATCAAAATAT
Found at i:55031582 original size:48 final size:49
Alignment explanation
Indices: 55031503--55031674 Score: 301
Period size: 49 Copynumber: 3.5 Consensus size: 49
55031493 TTACATTAAT
* * *
55031503 ATAAACTATTTTTTATTTTATTAAATGAAATAATATCAAAATATTCAAA
1 ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
55031552 ATAAACTATTTTGT-TTTTATTACATCAAATAATATCAAAATATTCAAA
1 ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
*
55031600 ATAAACTATTTTGTATTTGATTACATCAAATAATATCAAAATATTCAAA
1 ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
55031649 ATAAACTATTTTGTATTTTATTACAT
1 ATAAACTATTTTGTATTTTATTACAT
55031675 TAATACAAAC
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
48 46 0.39
49 71 0.61
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (49 bp):
ATAAACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAA
Found at i:55031686 original size:127 final size:127
Alignment explanation
Indices: 55031396--55031644 Score: 362
Period size: 127 Copynumber: 2.0 Consensus size: 127
55031386 TGTATTTTAT
*
55031396 TAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACATCAAATAATATC
1 TAAATGAAATAATATCAAAATATTCAAAACAAACTATTTTGTATTTTATTACATCAAATAATATC
* * * **** *
55031461 AAAATATTCAAAATGAACTATTTTGTATTTTATTACATTAATATAAACTATTTTTTATTTTA
66 AAAATATTCAAAATAAACTATTTTGTATTTGATTACATCAATATAAACTATAAAATATTTCA
*
55031523 TTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGT-TTTTATTACATCAAATAATAT
1 -TAAATGAAATAATATCAAAATATTCAAAACAAACTATTTTGTATTTTATTACATCAAATAATAT
55031587 CAAAATATTCAAAATAAACTATTTTGTATTTGATTACATCAA-AT-AA-TATCAAAATATT
65 CAAAATATTCAAAATAAACTATTTTGTATTTGATTACATCAATATAAACTAT-AAAATATT
55031645 CAAAATAAAC
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
124 3 0.03
125 6 0.05
126 2 0.02
127 60 0.53
128 42 0.37
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (127 bp):
TAAATGAAATAATATCAAAATATTCAAAACAAACTATTTTGTATTTTATTACATCAAATAATATC
AAAATATTCAAAATAAACTATTTTGTATTTGATTACATCAATATAAACTATAAAATATTTCA
Found at i:55031701 original size:97 final size:94
Alignment explanation
Indices: 55031503--55031683 Score: 276
Period size: 97 Copynumber: 1.9 Consensus size: 94
55031493 TTACATTAAT
* * *
55031503 ATAAACTATTTTTTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
1 ATAAACTATTTTGTATTTGATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
55031568 TTATTACATCAAATAATATCAAAATATTCAAA
66 TTATTACAT---ATAATATCAAAATATTCAAA
*
55031600 ATAAACTATTTTGTATTTGATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTAT
1 ATAAACTATTTTGTATTTGATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGT-T
55031665 TTTATTACAT-TAATA-CAAA
65 TTTATTACATATAATATCAAA
55031684 CTACTTTGTA
Statistics
Matches: 79, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
93 4 0.05
94 5 0.06
97 59 0.75
98 11 0.14
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (94 bp):
ATAAACTATTTTGTATTTGATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTTT
TTATTACATATAATATCAAAATATTCAAA
Found at i:55033978 original size:22 final size:22
Alignment explanation
Indices: 55033952--55034026 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
55033942 AAATATGAAT
55033952 TTGAGAGAATATTAGAGAGAAA
1 TTGAGAGAATATTAGAGAGAAA
*
55033974 TTGAGATAATATTAGAGAGAAA
1 TTGAGAGAATATTAGAGAGAAA
*
55033996 TTGAGAGAATATTAGTGAGAAA
1 TTGAGAGAATATTAGAGAGAAA
55034018 TTGAGAGAA
1 TTGAGAGAA
55034027 AGGATTTAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (22 bp):
TTGAGAGAATATTAGAGAGAAA
Found at i:55034027 original size:10 final size:10
Alignment explanation
Indices: 55033952--55034027 Score: 80
Period size: 10 Copynumber: 7.0 Consensus size: 10
55033942 AAATATGAAT
55033952 TTGAGAGAATA
1 TTGAGAGAA-A
55033963 TTAGAGAGAAA
1 TT-GAGAGAAA
*
55033974 TTGAGATAATA
1 TTGAGAGAA-A
55033985 TTAGAGAGAAA
1 TT-GAGAGAAA
55033996 TTGAGAGAATA
1 TTGAGAGAA-A
*
55034007 TTAGTGAGAAA
1 TT-GAGAGAAA
55034018 TTGAGAGAAA
1 TTGAGAGAAA
55034028 GGATTTAGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
10 20 0.36
11 17 0.30
12 19 0.34
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:55035904 original size:31 final size:31
Alignment explanation
Indices: 55035851--55035950 Score: 85
Period size: 33 Copynumber: 3.1 Consensus size: 31
55035841 ATAAGACATA
* *
55035851 ATAAA-AAATATATATAAGTATGTATATATAT
1 ATAAATAAAT-TATAAAAATATGTATATATAT
*
55035882 ATAAATAAATTATAAAAATATGTACGTGTATAT
1 ATAAATAAATTATAAAAATATGTA--TATATAT
** * *
55035915 ATATGTATATTATAAAAATGTATGTATTTATAT
1 ATAAATAAATTATAAAAA--TATGTATATATAT
55035948 ATA
1 ATA
55035951 TAACGAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 17 0.30
32 4 0.07
33 30 0.53
35 6 0.11
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (31 bp):
ATAAATAAATTATAAAAATATGTATATATAT
Found at i:55035947 original size:33 final size:32
Alignment explanation
Indices: 55035866--55035952 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
55035856 AAATATATAT
*
55035866 AAGTATGTATATATATATAAATAAATTATAAA
1 AAGTATGTATATATATATATATAAATTATAAA
* * *
55035898 AA-TATGTACGTGTATATATATGTATATTATAAA
1 AAGTATGTA--TATATATATATATAAATTATAAA
*
55035931 AATGTATGTATTTATATATATA
1 AA-GTATGTATATATATATATA
55035953 ACGAAATTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 6 0.13
32 2 0.04
33 31 0.69
35 6 0.13
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (32 bp):
AAGTATGTATATATATATATATAAATTATAAA
Found at i:55037185 original size:13 final size:13
Alignment explanation
Indices: 55037167--55037191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55037157 GGGCTAAGGG
55037167 TTTTGGGTTGTTA
1 TTTTGGGTTGTTA
55037180 TTTTGGGTTGTT
1 TTTTGGGTTGTT
55037192 CTTAAGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.00, G:0.32, T:0.64
Consensus pattern (13 bp):
TTTTGGGTTGTTA
Found at i:55037862 original size:45 final size:44
Alignment explanation
Indices: 55037806--55037998 Score: 185
Period size: 44 Copynumber: 4.3 Consensus size: 44
55037796 ACTGCAAAGC
* * ***
55037806 CAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCTGTTGCAACTT
1 CAGGGAGATAAGATT-GCTATCTTCAGTCTGCTCCACTGCAACTT
**
55037851 CAGGGAGATAAGACTTG-TATCTTCAACCTGCTCCACTGCAACTT
1 CAGGGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTT
* * *
55037895 CAGGGAGATAAGGTTTGCTTTCTTTAGTCTGCTCCACTGCAACTT
1 CAGGGAGATAA-GATTGCTATCTTCAGTCTGCTCCACTGCAACTT
* * * *
55037940 CAAGGAGATAAGACTTG-TATCTTCA-ACGTACTCCATTGCAACTT
1 CAGGGAGATAAGA-TTGCTATCTTCAGTC-TGCTCCACTGCAACTT
*
55037984 TAGGGAGATAAGATT
1 CAGGGAGATAAGATT
55037999 CGCCATGATA
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
43 3 0.02
44 67 0.55
45 50 0.41
46 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CAGGGAGATAAGATTGCTATCTTCAGTCTGCTCCACTGCAACTT
Found at i:55037891 original size:44 final size:44
Alignment explanation
Indices: 55037843--55037996 Score: 200
Period size: 44 Copynumber: 3.5 Consensus size: 44
55037833 TCTGCTCTGT
55037843 TGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCTCCAC
** * * **
55037887 TGCAACTTCAGGGAGATAAGGTTTGCTTTCTTTAGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTTG-TATCTTCAACCTGCTCCAC
* * * *
55037932 TGCAACTTCAAGGAGATAAGACTTGTATCTTCAACGTACTCCAT
1 TGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCTCCAC
*
55037976 TGCAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
55037997 TTCGCCATGA
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 54 0.59
45 37 0.41
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTGCTCCAC
Found at i:55037906 original size:89 final size:89
Alignment explanation
Indices: 55037774--55038001 Score: 276
Period size: 89 Copynumber: 2.6 Consensus size: 89
55037764 ATCTGTCATA
* * * * *** *
55037774 ACTTGTAGCTTTAATCTATTCCACTGCAAAGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCT
1 ACTTGTATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAGTCTGCT
*** *
55037839 CTGTTGCAACTTCAGGGAGATAAG
66 CCACTGCAACTTCAAGGAGATAAG
* * * * *
55037863 ACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTTTCTTTAGTCTGCT
1 ACTTGTATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAGTCTGCT
55037928 CCACTGCAACTTCAAGGAGATAAG
66 CCACTGCAACTTCAAGGAGATAAG
* * *
55037952 ACTTGTATCTTCAACGTACTCCATTGCAACTTTAGGGAGATAAGATTCGC
1 ACTTGTATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGC
55038002 CATGATAACT
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 116 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
ACTTGTATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTGTCTTCAGTCTGCT
CCACTGCAACTTCAAGGAGATAAG
Found at i:55046268 original size:10 final size:10
Alignment explanation
Indices: 55046253--55046282 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
55046243 CGCTTGAACT
55046253 TTTCTCACCC
1 TTTCTCACCC
55046263 TTTCTCACCC
1 TTTCTCACCC
55046273 TTTCTCACCC
1 TTTCTCACCC
55046283 ATATAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.50, G:0.00, T:0.40
Consensus pattern (10 bp):
TTTCTCACCC
Found at i:55048538 original size:37 final size:37
Alignment explanation
Indices: 55048495--55048576 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
55048485 TCAGGCCGGG
55048495 CCGGGCCCGGGCCTAGGAGGCGGGCAAAAAAAATTTT
1 CCGGGCCCGGGCCTAGGAGGCGGGCAAAAAAAATTTT
* *
55048532 TCGGGCCCGGGCCTAGGAGGCGGGCCAAAAAAATTTT
1 CCGGGCCCGGGCCTAGGAGGCGGGCAAAAAAAATTTT
55048569 CCGGGCCC
1 CCGGGCCC
55048577 AGCCCGGCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.13
Consensus pattern (37 bp):
CCGGGCCCGGGCCTAGGAGGCGGGCAAAAAAAATTTT
Found at i:55050179 original size:43 final size:43
Alignment explanation
Indices: 55050118--55050517 Score: 554
Period size: 43 Copynumber: 9.3 Consensus size: 43
55050108 CGCTGTTGTC
* *
55050118 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCACACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
55050161 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
55050204 AATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCTACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
55050247 AATGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
55050289 AACGCCGTTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* * * * **
55050332 AACGCCGTTATAGATTAGGGCCTTTAGCGGCGTTTTTTTCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* * *
55050375 AACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
55050418 AACGCAGTTATA-ACTCAGGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGA-TCAGGACCTTTAGCGGCGCTTTTCCCACA
* ***
55050461 AACGCCGCTATAGGTCAAGG-CCTTTAGCGGCGCTTTTTTTACA
1 AACGCCGCTATAGATC-AGGACCTTTAGCGGCGCTTTTCCCACA
*
55050504 AACGCCACTATAGA
1 AACGCCGCTATAGA
55050518 CCAAAGCTTT
Statistics
Matches: 317, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
42 39 0.12
43 275 0.87
44 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
Found at i:55050408 original size:171 final size:172
Alignment explanation
Indices: 55050118--55050517 Score: 561
Period size: 171 Copynumber: 2.3 Consensus size: 172
55050108 CGCTGTTGTC
* *
55050118 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCACACAAACGCCGCTATAGATCAGGACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGATCAGGACC
* * * * *
55050183 TTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCTACAA
66 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCAAAA
* *
55050248 ATGCCGCTATAGA-TCAGGACCTTTAGCGGCGC-TTTCCCACA
131 ACGCAGCTATA-ACTCAGGACCTTTAGCGGCGCTTTTCCCACA
* * * * *
55050289 AACGCCGTTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGTTATAGATTAGGGCC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGATCAGGACC
* **
55050354 TTTAGCGGCGTTTTTTTCACAAACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCAAAA
66 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCAAAA
*
55050419 ACGCAGTTATAACTCAGGACCTTTAGCGGCGCTTTTCCCACA
131 ACGCAGCTATAACTCAGGACCTTTAGCGGCGCTTTTCCCACA
* * *** *
55050461 AACGCCGCTATAGGTCAAGGCCTTTAGCGGCGCTTTTTTTACAAACGCCACTATAGA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGA
55050518 CCAAAGCTTT
Statistics
Matches: 201, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
170 1 0.00
171 142 0.71
172 58 0.29
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (172 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGATCAGGACC
TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCAAAA
ACGCAGCTATAACTCAGGACCTTTAGCGGCGCTTTTCCCACA
Found at i:55050530 original size:214 final size:214
Alignment explanation
Indices: 55050118--55050551 Score: 577
Period size: 214 Copynumber: 2.0 Consensus size: 214
55050108 CGCTGTTGTC
*
55050118 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCACACAAACGCCGCTATAGATCAGGACC
1 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCACACAAACGCCGCTATAGATCAAGACC
* * * * *
55050183 TTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCTACAA
66 TTTAACGGCGCTTTTCCCAAAAACGCAGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAA
* ** *
55050248 ATGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCACAAACGCCGTTATAGATCAAGACCTT
131 ACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCACAAACGCCACTATAGACCAAGACCTT
* * *
55050313 TAGCGGCGCTTTTCCCACA
196 TAGCGACGCTTCTCCCAAA
* * * * * **
55050332 AACGCCGTTATAGATTAGGGCCTTTAGCGGCGTTTTTTTCACAAACGCCGCTATAGATCAAGACC
1 AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCACACAAACGCCGCTATAGATCAAGACC
*
55050397 TTTAACGGCGCTTTTCCCAAAAACGCAGTTATA-ACTCAGGACCTTTAGCGGCGCTTTTCCCACA
66 TTTAACGGCGCTTTTCCCAAAAACGCAGCTATAGA-TCAGGACCTTTAGCGGCGCTTTTCCCACA
* *** *
55050461 AACGCCGCTATAGGTCAAGG-CCTTTAGCGGCGCTTTTTTTACAAACGCCACTATAGACCAA-AG
130 AACGCCGCTATAGATC-AGGACCTTTAGCGGCGC-TTTCCCACAAACGCCACTATAGACCAAGAC
*
55050524 CTTTAGCGACGCTTCTCGCAAA
193 CTTTAGCGACGCTTCTCCCAAA
55050546 AACGCC
1 AACGCC
55050552 ACTAAAAACA
Statistics
Matches: 190, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
213 1 0.01
214 165 0.87
215 24 0.13
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (214 bp):
AACGCCGCTATAGATCAGGACCTTTAGCAGCGCTTTTCACACAAACGCCGCTATAGATCAAGACC
TTTAACGGCGCTTTTCCCAAAAACGCAGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAA
ACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCACAAACGCCACTATAGACCAAGACCTT
TAGCGACGCTTCTCCCAAA
Found at i:55053416 original size:26 final size:26
Alignment explanation
Indices: 55053381--55053441 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
55053371 TACATAATAC
55053381 TACTTTTAATTATTAGAATTAAGTCA
1 TACTTTTAATTATTAGAATTAAGTCA
55053407 TACTTTTAATTATTAGAATTAAGTCA
1 TACTTTTAATTATTAGAATTAAGTCA
55053433 TACTGTTTA
1 TACT-TTTA
55053442 GTTGTTTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (26 bp):
TACTTTTAATTATTAGAATTAAGTCA
Found at i:55055484 original size:16 final size:16
Alignment explanation
Indices: 55055456--55055488 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55055446 TCTCTTTTAC
55055456 AATTATATAATAAATT
1 AATTATATAATAAATT
55055472 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
55055488 A
1 A
55055489 GAAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:55055628 original size:15 final size:14
Alignment explanation
Indices: 55055589--55055637 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
55055579 CCCCATCCTT
*
55055589 TAAACCATAAACCC
1 TAAACCATAATCCC
*
55055603 TGAACCATAATCCC
1 TAAACCATAATCCC
*
55055617 TAAACTCATAATCCA
1 TAAAC-CATAATCCC
55055632 TAAACC
1 TAAACC
55055638 TTAAAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:55055817 original size:17 final size:18
Alignment explanation
Indices: 55055795--55055832 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
55055785 CCCAAAAAAA
55055795 TTTAAAATTATTTT-AAT
1 TTTAAAATTATTTTAAAT
55055812 TTTAAAATTATTTTAAAT
1 TTTAAAATTATTTTAAAT
55055830 TTT
1 TTT
55055833 CCATTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAAAATTATTTTAAAT
Found at i:55055824 original size:27 final size:29
Alignment explanation
Indices: 55055794--55055864 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 29
55055784 ACCCAAAAAA
* *
55055794 ATTTAAAATTATTTTAATTT-TAA-AATT
1 ATTTTAAATTATTTTAATTTCTAACAAAT
**
55055821 ATTTTAAA-T-TTTCCATTTCTAACAAAT
1 ATTTTAAATTATTTTAATTTCTAACAAAT
55055848 ATTTTAAATTATTTTAA
1 ATTTTAAATTATTTTAA
55055865 ATCCCTAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 7 0.21
26 4 0.12
27 18 0.53
28 1 0.03
29 4 0.12
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTTTAAATTATTTTAATTTCTAACAAAT
Found at i:55056242 original size:41 final size:41
Alignment explanation
Indices: 55055872--55056234 Score: 555
Period size: 41 Copynumber: 8.9 Consensus size: 41
55055862 TAAATCCCTA
* * *
55055872 AGCATTAGCGGCGCTTTATCAAAAACACCACTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
55055913 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACTCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
55055954 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
55055995 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * **
55056036 AGCATTAGCGGCCCTTTCTCAAAAACGCCGTTAAAGACTAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * * *
55056077 AGCATTAGAGGCGCTTCCCCAAAAACGCCGCTAAAGACCCT
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * *
55056118 AGCTTTAGTGGCGCTTTATCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
55056159 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * *
55056200 AACATTAGCGGTGCTTTCTCAAAAACACCGCTAAA
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
55056235 TCTCCGAAAG
Statistics
Matches: 293, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 293 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
Found at i:55060720 original size:23 final size:23
Alignment explanation
Indices: 55060694--55060741 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
55060684 AGGAAATAAT
*
55060694 TTTTTAACTAAATTAGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG
*
55060717 TTTTTAACTAAATTAGGTTAGGG
1 TTTTTAATTAAATTAGGTTAGGG
55060740 TT
1 TT
55060742 AAGGTTAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (23 bp):
TTTTTAATTAAATTAGGTTAGGG
Found at i:55060738 original size:28 final size:28
Alignment explanation
Indices: 55060706--55060993 Score: 263
Period size: 28 Copynumber: 10.2 Consensus size: 28
55060696 TTTAACTAAA
*
55060706 TTAGGTTAGGGTTTTTAACTAAATTAGGTTAGGG
1 TTAGGTTAGGGTTTTTAA-TTAA--A--TTA-GG
**
55060740 TTAAGGTTAGGGTTTTTAATTAAATTAAA
1 TT-AGGTTAGGGTTTTTAATTAAATTAGG
*
55060769 TTAGGTTAGGGTTTTTAACT-AA--A--
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
**
55060792 TTAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
**
55060820 TTAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
*
55060848 CTAGGTTAGGG--TTT--TT-AATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
* *
55060871 TTAAGTTAGGGTTTTTAATTAAAATAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
55060899 TTAGGTTAGGGTTTTTAATTAAGTTAAATTAGG
1 TTAGGTTAGGG--TTT--TTAA-TTAAATTAGG
**
55060932 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTA-GGTTAGGGTTTTTAATTAAATTAGG
*
55060961 TTAGGTTAGGGTTTTTAACTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATTAGG
55060989 TTAGG
1 TTAGG
55060994 GTTTTTAATC
Statistics
Matches: 219, Mismatches: 18, Indels: 40
0.79 0.06 0.14
Matches are distributed among these distances:
23 33 0.15
24 4 0.02
25 4 0.02
26 4 0.02
27 4 0.02
28 98 0.45
29 13 0.06
30 10 0.05
32 8 0.04
33 12 0.05
34 13 0.06
35 16 0.07
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (28 bp):
TTAGGTTAGGGTTTTTAATTAAATTAGG
Found at i:55060803 original size:51 final size:52
Alignment explanation
Indices: 55060743--55060939 Score: 235
Period size: 51 Copynumber: 3.8 Consensus size: 52
55060733 GTTAGGGTTA
*
55060743 AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAACTAAA-TT
1 AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAAGTT
*
55060794 AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAAACT
1 AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAAGT----T
**
55060850 AGGTTAGGGTTTTTAATTAGGTT--A--A-GTTAGGGTTTTTAATTAAAATAGGTT
1 AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATT--AA-A-GTT
*
55060901 AGGTTAGGGTTTTTAATTAAGTTAAATTAGGTTAGGGTT
1 AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTT
55060940 AGGGTTTTTA
Statistics
Matches: 127, Mismatches: 5, Indels: 23
0.82 0.03 0.15
Matches are distributed among these distances:
51 87 0.69
52 2 0.02
53 3 0.02
54 2 0.02
55 2 0.02
56 31 0.24
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (52 bp):
AGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAAGTT
Found at i:55060811 original size:18 final size:21
Alignment explanation
Indices: 55060765--55060817 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 21
55060755 TTAATTAAAT
55060765 TAAATTAGGTTAGGGTTTTTAA
1 TAAATTAGGTTAGGGTTTTT-A
55060787 CTAAATTAGGTTAGGGTTTTTAA
1 -TAAATTAGGTTAGGGTTTTT-A
55060810 TTAAATTA
1 -TAAATTA
55060818 AATTAGGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (21 bp):
TAAATTAGGTTAGGGTTTTTA
Found at i:55060973 original size:34 final size:33
Alignment explanation
Indices: 55060864--55060970 Score: 152
Period size: 34 Copynumber: 3.4 Consensus size: 33
55060854 TAGGGTTTTT
*
55060864 AATTAGGTTAAGTTAGGGTTTTTAATT--A--A
1 AATTAGGTTAGGTTAGGGTTTTTAATTAAATTA
*
55060893 AA-TAGGTTAGGTTAGGGTTTTTAATTAAGTTA
1 AATTAGGTTAGGTTAGGGTTTTTAATTAAATTA
55060925 AATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGTTA-GGTTAGGGTTTTTAATTAAATTA
55060959 AATTAGGTTAGG
1 AATTAGGTTAGG
55060971 GTTTTTAACT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
28 23 0.33
29 2 0.03
32 3 0.04
33 9 0.13
34 32 0.46
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (33 bp):
AATTAGGTTAGGTTAGGGTTTTTAATTAAATTA
Found at i:55060993 original size:62 final size:61
Alignment explanation
Indices: 55060864--55060986 Score: 183
Period size: 62 Copynumber: 2.0 Consensus size: 61
55060854 TAGGGTTTTT
** * *
55060864 AATTAGGTTAAGTTAGGGTTTTTAATTAAAATAGGTTAGGTTAGGGTTTTTAATTAAGTTA
1 AATTAGGTTAAGTTAGGGTTTTTAATTAAAATAAATTAGGTTAGGGTTTTTAACTAAATTA
* *
55060925 AATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAACTAAATTA
1 AATTAGGTTA-AGTTAGGGTTTTTAATTAAAATAAATTAGGTTAGGGTTTTTAACTAAATTA
55060987 GGTTAGGGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
61 10 0.18
62 45 0.82
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (61 bp):
AATTAGGTTAAGTTAGGGTTTTTAATTAAAATAAATTAGGTTAGGGTTTTTAACTAAATTA
Found at i:55063108 original size:14 final size:15
Alignment explanation
Indices: 55063091--55063124 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
55063081 AATAAATATC
55063091 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
55063105 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
55063120 TAAAA
1 TAAAA
55063125 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:55063351 original size:22 final size:22
Alignment explanation
Indices: 55063321--55063362 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55063311 ATTTGGAGAT
*
55063321 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
55063343 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
55063363 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:55063370 original size:30 final size:30
Alignment explanation
Indices: 55063334--55063392 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
55063324 TTGAAGGAAA
*
55063334 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
55063364 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
55063393 AATTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:55063383 original size:52 final size:51
Alignment explanation
Indices: 55063312--55063414 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
55063302 TTAATATGGA
* * *
55063312 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAA-TTGAGAG
* *
55063363 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAACGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
55063415 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 37 0.82
53 4 0.09
ACGTcount: A:0.33, C:0.01, G:0.32, T:0.34
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
Found at i:55063388 original size:22 final size:22
Alignment explanation
Indices: 55063363--55063433 Score: 108
Period size: 22 Copynumber: 3.2 Consensus size: 22
55063353 AATTTGAGAG
*
55063363 TTTGAGAGAATTTTGGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
55063385 TTTGAGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAA-GGAA
55063408 -TTGAGAGAATTTTTGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
*
55063429 ATTGA
1 TTTGA
55063434 TATTGAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 4 0.09
22 38 0.83
23 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.28, T:0.34
Consensus pattern (22 bp):
TTTGAGAGAATTTTTGAAGGAA
Found at i:55068325 original size:35 final size:35
Alignment explanation
Indices: 55068241--55068311 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
55068231 TTTGCTTGCT
55068241 TAGTTGTTTCAATTATCTTCAGATTCTTGTCACTA
1 TAGTTGTTTCAATTATCTTCAGATTCTTGTCACTA
55068276 TAGTTGTTTCAATTATCTTCAGATTCTTGTCACTA
1 TAGTTGTTTCAATTATCTTCAGATTCTTGTCACTA
55068311 T
1 T
55068312 GTATTTTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (35 bp):
TAGTTGTTTCAATTATCTTCAGATTCTTGTCACTA
Found at i:55068802 original size:29 final size:30
Alignment explanation
Indices: 55068759--55068816 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
55068749 GGAGGTGGGA
*
55068759 TGGGAAGGGAATAAAAGTTTTAGGGGAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAG
* *
55068789 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAA
55068817 ATAAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAG
Found at i:55072678 original size:139 final size:139
Alignment explanation
Indices: 55072428--55072707 Score: 533
Period size: 139 Copynumber: 2.0 Consensus size: 139
55072418 AAAATTATAT
55072428 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
55072493 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
*
55072558 ATCGCAATA
131 ATCACAATA
* *
55072567 TCATAAAATTACTTTTAAGTCACAGCCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
55072632 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
55072697 ATCACAATA
131 ATCACAATA
55072706 TC
1 TC
55072708 TTTAAGTAGA
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 138 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (139 bp):
TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
ATCACAATA
Found at i:55075164 original size:6 final size:6
Alignment explanation
Indices: 55075153--55075188 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
55075143 TGGTGAAACT
55075153 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
55075189 GTTTTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:55079492 original size:12 final size:12
Alignment explanation
Indices: 55079475--55079500 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55079465 ATCAAATTTT
55079475 AAAAAATTATTA
1 AAAAAATTATTA
55079487 AAAAAATTATTA
1 AAAAAATTATTA
55079499 AA
1 AA
55079501 TTATTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTATTA
Found at i:55081605 original size:4 final size:4
Alignment explanation
Indices: 55081596--55081707 Score: 224
Period size: 4 Copynumber: 28.0 Consensus size: 4
55081586 GTAAGGGTAG
55081596 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
55081644 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
55081692 CATA CATA CATA CATA
1 CATA CATA CATA CATA
55081708 TGTTTTTCAG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 108 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:55084252 original size:13 final size:14
Alignment explanation
Indices: 55084224--55084260 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
55084214 CCAAAAAAGT
55084224 AAATCATTTTTCAG
1 AAATCATTTTTCAG
55084238 AAATCATTTTT-AG
1 AAATCATTTTTCAG
*
55084251 AAAACATTTT
1 AAATCATTTT
55084261 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:55090364 original size:40 final size:40
Alignment explanation
Indices: 55090261--55090367 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
55090251 GCTTTAGTGG
* * *
55090261 CATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGAG
1 CATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGAA
* * * *
55090301 CATTAGCGGCACTATTTGAAAAATGTCGCTATAGATCGAA
1 CATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGAA
* *
55090341 CATTAGTGGCGCTTTTTGGAAAATGCC
1 CATTAGCGGCGCTTTTTGAAAAATGCC
55090368 ACAAAAAAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGAA
Found at i:55090446 original size:155 final size:154
Alignment explanation
Indices: 55090174--55090478 Score: 502
Period size: 155 Copynumber: 2.0 Consensus size: 154
55090164 AAAAAAAGCT
* **
55090174 GCTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAATGCTGCAAAAAAGTTGAGCAAAACACGTC
1 GCTATAGATCGAACATTAGCGGCGCTTTTCGAAAAATGCCACAAAAAAGTTGAGCAAAACACGTC
*
55090239 GTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGAGCAT
66 GTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGAGCAT
55090304 TAGCGGCACTATTTGAAAAATGTC
131 TAGCGGCACTATTTGAAAAATGTC
* * *
55090328 GCTATAGATCGAACATTAGTGGCGCTTTTTGGAAAATGCCACAAAAAAGTTGAGCAAAACGACGT
1 GCTATAGATCGAACATTAGCGGCGCTTTTCGAAAAATGCCACAAAAAAGTTGAGCAAAAC-ACGT
* *
55090393 CGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTTTAAAAAACGCCGCAATAGATCGAGCA
65 CGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGAGCA
* *
55090458 TTAGCGGCGCTTTTTGAAAAA
130 TTAGCGGCACTATTTGAAAAA
55090479 AACGCCGTAA
Statistics
Matches: 139, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
154 54 0.39
155 85 0.61
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (154 bp):
GCTATAGATCGAACATTAGCGGCGCTTTTCGAAAAATGCCACAAAAAAGTTGAGCAAAACACGTC
GTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGAGCAT
TAGCGGCACTATTTGAAAAATGTC
Found at i:55090530 original size:117 final size:118
Alignment explanation
Indices: 55090300--55090596 Score: 370
Period size: 117 Copynumber: 2.6 Consensus size: 118
55090290 AATAGATCGA
* * * * * * *
55090300 GCATTAGCGGCACTATTTG--AAAAATGTCGCTATAGATCGAACATTAGTGGCGCTTTTTG--GA
1 GCATTAGCGGCGCT-TTTGTAAAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTTGAAAA
* *
55090361 AAATGCCACAAAAAAGTTGAGCAAAACGACGTCGTTTATTGTTGAGCTTTAGTG
65 AAACGCCACAAAAAAGTTGAGCAAAACGACGTCGTTTATTGTTGAGCATTAGTG
* *
55090415 GCATTAGTGGCTCTTTT-TAAAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTTGAAAAA
1 GCATTAGCGGCGCTTTTGTAAAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTTGAAAAA
** * *
55090479 AACGCCGTAAAAAATTTGAGCAAAACGACGTCGTTTGTTGTTGAGCATTAGTG
66 AACGCCACAAAAAAGTTGAGCAAAACGACGTCGTTTATTGTTGAGCATTAGTG
* * * * *
55090532 GCATTAGCGGCGCTTTTGTAAAAAATGCTGCAATAGATTGAGAATTAGCGGCGCTTGTTGAAAAA
1 GCATTAGCGGCGCTTTTGTAAAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTTGAAAAA
55090597 CGCCGCTATA
Statistics
Matches: 156, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
114 3 0.02
115 47 0.30
117 64 0.41
118 42 0.27
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (118 bp):
GCATTAGCGGCGCTTTTGTAAAAAACGCCGCAATAGATCGAGCATTAGCGGCGCTTTTTGAAAAA
AACGCCACAAAAAAGTTGAGCAAAACGACGTCGTTTATTGTTGAGCATTAGTG
Found at i:55090537 original size:272 final size:269
Alignment explanation
Indices: 55090177--55090692 Score: 768
Period size: 273 Copynumber: 1.9 Consensus size: 269
55090167 AAAAGCTGCT
* *
55090177 ATAGATCGAGCATTAGCGGCGCTTTTCGAAAAATGCTGCAAAAAAGTTGAGCAAAACACGTCGTT
1 ATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCGCAAAAAAGTTGAGCAAAACACGTCGTT
* *
55090242 TGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTT-TAAAAAACGCCGCAATAGATCGAGCATTA
66 TGTTGTTGAGCATTAGTGGCATTAGCGGCGCTTTTGTAAAAAACGCCGCAATAGATCGAGAATTA
* * * ***
55090306 GCGGCACTAT-TTGAAAAATGTCGCTATAGATCGAACATTAGTGGCGCTTTTTGGAAAA-TGCCA
131 GCGGCACT-TGTTGAAAAACGCCGCTATAGATCGAACATTAGCGGCGCTTTTCACAAAACT-CCA
55090369 CAAAAAAGTTGAGCAAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTTTA
194 CAAAAAAGTTGAG-AAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTTTA
55090434 AAAAACGCCGCA
258 AAAAACGCCGCA
* * *
55090446 ATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAAACGCCGTAAAAAATTTGAGCAAAACGACGTC
1 ATAGATCGAGCATTAGCGGCGCTTTTCG--AAAAACGCCGCAAAAAAGTTGAGCAAAAC-ACGTC
* * *
55090511 GTTTGTTGTTGAGCATTAGTGGCATTAGCGGCGCTTTTGTAAAAAATGCTGCAATAGATTGAGAA
63 GTTTGTTGTTGAGCATTAGTGGCATTAGCGGCGCTTTTGTAAAAAACGCCGCAATAGATCGAGAA
* *
55090576 TTAGCGGCGCTTGTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCACAAAACTCC
128 TTAGCGGCACTTGTTGAAAAACGCCGCTATAGATCGAACATTAGCGGCGCTTTTCACAAAACTCC
* * *
55090641 GCAAAAAAGTTGAGAAAACGATGTCGTTTGTTGTTGAGCTTTAGTGGCATTA
193 ACAAAAAAGTTGAGAAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCATTA
55090693 TCAAAAATGT
Statistics
Matches: 220, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
269 27 0.12
271 25 0.11
272 79 0.36
273 88 0.40
274 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (269 bp):
ATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCGCAAAAAAGTTGAGCAAAACACGTCGTT
TGTTGTTGAGCATTAGTGGCATTAGCGGCGCTTTTGTAAAAAACGCCGCAATAGATCGAGAATTA
GCGGCACTTGTTGAAAAACGCCGCTATAGATCGAACATTAGCGGCGCTTTTCACAAAACTCCACA
AAAAAGTTGAGAAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTTTAAAA
AACGCCGCA
Found at i:55090608 original size:40 final size:40
Alignment explanation
Indices: 55090534--55090644 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
55090524 CATTAGTGGC
* * *
55090534 ATTAGCGGCGCTTTTGTAAAAAATGCTGCAATAGATTGAGA
1 ATTAGCGGCGCTTTTG-AAAAAACGCCGCAATAGATCGAGA
* *
55090575 ATTAGCGGCGCTTGTTG-AAAAACGCCGCTATAGATCGAGC
1 ATTAGCGGCGCTT-TTGAAAAAACGCCGCAATAGATCGAGA
* * *
55090615 ATTAGCGGCGCTTTTCACAAAACTCCGCAA
1 ATTAGCGGCGCTTTTGAAAAAACGCCGCAA
55090645 AAAAGTTGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.03
40 41 0.69
41 13 0.22
42 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTGAAAAAACGCCGCAATAGATCGAGA
Found at i:55090807 original size:21 final size:22
Alignment explanation
Indices: 55090783--55090836 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
55090773 ATGATATAAT
*
55090783 GTTTATTA-TTTAGGGATTAGA
1 GTTTATGAGTTTAGGGATTAGA
* *
55090804 GTTT-TGAGTTTAGGGTTTATA
1 GTTTATGAGTTTAGGGATTAGA
55090825 GTTTA-GAGTTTA
1 GTTTATGAGTTTA
55090837 TGGTTTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (22 bp):
GTTTATGAGTTTAGGGATTAGA
Found at i:55090821 original size:14 final size:15
Alignment explanation
Indices: 55090799--55090842 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
55090789 TATTTAGGGA
55090799 TTAGAGTTT-TGAGT
1 TTAGAGTTTATGAGT
*
55090813 TTAGGGTTTAT-AGT
1 TTAGAGTTTATGAGT
55090827 TTAGAGTTTATG-GT
1 TTAGAGTTTATGAGT
55090841 TT
1 TT
55090843 GGGGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (15 bp):
TTAGAGTTTATGAGT
Found at i:55090841 original size:21 final size:21
Alignment explanation
Indices: 55090791--55090842 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
55090781 ATGTTTATTA
* * *
55090791 TTTAGGGATTAGAGTTTTGAG
1 TTTAGGGTTTATAGTTTAGAG
55090812 TTTAGGGTTTATAGTTTAGAG
1 TTTAGGGTTTATAGTTTAGAG
*
55090833 TTTATGGTTT
1 TTTAGGGTTT
55090843 GGGGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTATAGTTTAGAG
Found at i:55090849 original size:14 final size:14
Alignment explanation
Indices: 55090810--55090851 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
55090800 TAGAGTTTTG
55090810 AGTTTAGGGTTTAT
1 AGTTTAGGGTTTAT
*
55090824 AGTTTAGAGTTTAT
1 AGTTTAGGGTTTAT
* *
55090838 GGTTTGGGGTTTAT
1 AGTTTAGGGTTTAT
55090852 TATTTTATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
AGTTTAGGGTTTAT
Found at i:55091121 original size:43 final size:43
Alignment explanation
Indices: 55091066--55091171 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
55091056 TATGGTTTAT
* *
55091066 GGTTTAGTGTTTAGTGTTTATAGTTTAAGGG-TTAGGGACTTAG
1 GGTTTAGGGTTTAATGTTTATAGTTT-AGGGCTTAGGGACTTAG
* * **
55091109 GGTTTAGGGTTTAAAGTTTATGGTTTAGGGCTTAGGGGTTTAG
1 GGTTTAGGGTTTAATGTTTATAGTTTAGGGCTTAGGGACTTAG
*
55091152 GGTTTATGGTTTAATGTTTA
1 GGTTTAGGGTTTAATGTTTA
55091172 GTGTCTGATT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 4 0.07
43 50 0.93
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (43 bp):
GGTTTAGGGTTTAATGTTTATAGTTTAGGGCTTAGGGACTTAG
Found at i:55091147 original size:29 final size:28
Alignment explanation
Indices: 55091105--55091164 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
55091095 GGTTAGGGAC
*
55091105 TTAGGGTTTAGGGTTTAAAGTTTATGGT
1 TTAGGGCTTAGGGTTTAAAGTTTATGGT
**
55091133 TTAGGGCTTAGGGGTTTAGGGTTTATGGT
1 TTAGGGCTTA-GGGTTTAAAGTTTATGGT
55091162 TTA
1 TTA
55091165 ATGTTTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (28 bp):
TTAGGGCTTAGGGTTTAAAGTTTATGGT
Found at i:55091153 original size:8 final size:7
Alignment explanation
Indices: 55091015--55091164 Score: 110
Period size: 7 Copynumber: 21.6 Consensus size: 7
55091005 GTAATATATA
55091015 TTTAGGG
1 TTTAGGG
55091022 TTTAGGG
1 TTTAGGG
55091029 TTTA-GG
1 TTTAGGG
*
55091035 TTTATGG
1 TTTAGGG
55091042 TTT--GG
1 TTTAGGG
* *
55091047 TATAGTG
1 TTTAGGG
*
55091054 TTTATGG
1 TTTAGGG
*
55091061 TTTATGG
1 TTTAGGG
*
55091068 TTTAGTG
1 TTTAGGG
*
55091075 TTTAGTG
1 TTTAGGG
**
55091082 TTTATAG
1 TTTAGGG
55091089 TTTAAGGG
1 TTT-AGGG
55091097 -TTAGGG
1 TTTAGGG
*
55091103 ACTTAGGG
1 -TTTAGGG
55091111 TTTAGGG
1 TTTAGGG
**
55091118 TTTAAAG
1 TTTAGGG
*
55091125 TTTATGG
1 TTTAGGG
55091132 TTTAGGG
1 TTTAGGG
*
55091139 CTTAGGGG
1 TTTA-GGG
55091147 TTTAGGG
1 TTTAGGG
*
55091154 TTTATGG
1 TTTAGGG
55091161 TTTA
1 TTTA
55091165 ATGTTTAGTG
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
5 4 0.03
6 10 0.09
7 88 0.76
8 14 0.12
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:55091171 original size:36 final size:36
Alignment explanation
Indices: 55091069--55091172 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 36
55091059 GGTTTATGGT
* * * *
55091069 TTAGTGTTTAGTGTTTATAGTTTAAGGGTTAGGGAC
1 TTAGGGTTTAGGGTTTATAGTTTAATGTTTAGGGAC
*
55091105 TTAGGGTTTAGGGTTTAAAGTTT-ATGGTTTAGGG-C
1 TTAGGGTTTAGGGTTTATAGTTTAAT-GTTTAGGGAC
*
55091140 TTAGGGGTTTAGGGTTTATGGTTTAATGTTTAG
1 TTA-GGGTTTAGGGTTTATAGTTTAATGTTTAG
55091173 TGTCTGATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 5 0.09
36 51 0.88
37 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (36 bp):
TTAGGGTTTAGGGTTTATAGTTTAATGTTTAGGGAC
Found at i:55091172 original size:29 final size:29
Alignment explanation
Indices: 55091109--55091172 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
55091099 AGGGACTTAG
*
55091109 GGTTTA-GGGTTTAAAGTTTATGGTTTAG
1 GGTTTAGGGGTTTAAAGTTTATGGTTTAA
* **
55091137 GGCTTAGGGGTTTAGGGTTTATGGTTTAA
1 GGTTTAGGGGTTTAAAGTTTATGGTTTAA
*
55091166 TGTTTAG
1 GGTTTAG
55091173 TGTCTGATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (29 bp):
GGTTTAGGGGTTTAAAGTTTATGGTTTAA
Found at i:55092359 original size:43 final size:43
Alignment explanation
Indices: 55092302--55092512 Score: 185
Period size: 43 Copynumber: 4.9 Consensus size: 43
55092292 GTTTTTTCAT
*
55092302 AAACGCCGCTAAAGAACGGTACT-TTTAGCGGCGTTTGTGATAA
1 AAACGCCGCTAAAGATC-GTACTCTTTAGCGGCGTTTGTGATAA
* ** * * *
55092345 AAACGCCGCTAAAGATCATGTTCTTTAGTGGTGTTTGTGAAAAA
1 AAACGCCGCTAAAGATCGTACTCTTTAGCGGCGTTTGTG-ATAA
* * * * *
55092389 AAAC-CCACTAAAGGTCATTA-TCTATAGCGGCATTTGTGATAA
1 AAACGCCGCTAAAGATC-GTACTCTTTAGCGGCGTTTGTGATAA
* * * *
55092431 AAACGCCGCTAAAGGTCATGCTCTTTAGCAGCGTTTGTGATAA
1 AAACGCCGCTAAAGATCGTACTCTTTAGCGGCGTTTGTGATAA
* * * **
55092474 AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
1 AAACGCCGCTAAAGATCGTACTCTTTAGCGGCGTTTGTG
55092513 GGTAAAGCGT
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
42 10 0.07
43 120 0.87
44 8 0.06
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCGTACTCTTTAGCGGCGTTTGTGATAA
Found at i:55092520 original size:43 final size:43
Alignment explanation
Indices: 55092325--55092595 Score: 307
Period size: 43 Copynumber: 6.3 Consensus size: 43
55092315 GAACGGTACT
*
55092325 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* * * *
55092368 TTTAGTGGTGTTTGTGAAAAAAAAC-CCACTAAAGGTCAT-TATC
1 TTTAGCGGCGTTTGTG-ATAAAAACGCCGCTAAAGGTCATGT-TC
* * *
55092411 TATAGCGGCATTTGTGATAAAAACGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* *
55092454 TTTAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
* * *
55092497 TTTAGCGGCGTTTGTGGGT-AAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAACGCCGCTAAAGGTCATGTTC
* * * * *
55092540 TTTAGCGGTGTGTT-TTATAAAAGCGCCACTAAATGTCATGTTC
1 TTTAGCGGCGT-TTGTGATAAAAACGCCGCTAAAGGTCATGTTC
*
55092583 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
55092596 TTTTCACATA
Statistics
Matches: 193, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
42 11 0.06
43 171 0.89
44 11 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAACGCCGCTAAAGGTCATGTTC
Found at i:55095112 original size:12 final size:12
Alignment explanation
Indices: 55095084--55095119 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
55095074 GCAAATGAAT
*
55095084 CATTTCTCATTTT
1 CATTTC-CATTTC
55095097 CATTTCCATTTC
1 CATTTCCATTTC
55095109 CATTTCCATTT
1 CATTTCCATTT
55095120 TCAATAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:55095121 original size:19 final size:19
Alignment explanation
Indices: 55095084--55095119 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
55095074 GCAAATGAAT
*
55095084 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
55095103 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
55095120 TCAATAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:55096558 original size:23 final size:22
Alignment explanation
Indices: 55096526--55096577 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
55096516 ACTTTTGTTA
*
55096526 TATATATATACATGCATATATTTT
1 TATA-ATATACATACATAT-TTTT
55096550 TATAATATACATACATATTTTT
1 TATAATATACATACATATTTTT
55096572 TATAAT
1 TATAAT
55096578 TATATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.37
23 13 0.48
24 4 0.15
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (22 bp):
TATAATATACATACATATTTTT
Found at i:55096581 original size:23 final size:23
Alignment explanation
Indices: 55096518--55096581 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
55096508 AAATTTTAAC
*
55096518 TTTTGTTATATATATATACATGCATA
1 TTTT-TTATA-AT-TATACATACATA
55096544 TATTTTTATAA-TATACATACATA
1 T-TTTTTATAATTATACATACATA
55096567 TTTTTTATAATTATA
1 TTTTTTATAATTATA
55096582 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
22 9 0.26
23 16 0.46
25 1 0.03
26 6 0.17
27 3 0.09
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (23 bp):
TTTTTTATAATTATACATACATA
Found at i:55096618 original size:12 final size:12
Alignment explanation
Indices: 55096601--55096635 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
55096591 TTTTATATTT
*
55096601 TATATACCTATC
1 TATATACATATC
*
55096613 TATATATATATC
1 TATATACATATC
55096625 TATATACATAT
1 TATATACATAT
55096636 TTTTTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:55098868 original size:221 final size:221
Alignment explanation
Indices: 55098482--55098932 Score: 767
Period size: 221 Copynumber: 2.0 Consensus size: 221
55098472 CACTTTATTA
* * *
55098482 AGCATAACAACCTATGTATTCATCAACTATTCAAACATGGTTCTTTATTCACATTTAATATTCCA
1 AGCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTCCA
*
55098547 AACTCAATCAAAACATATTTAAAGTATACCATTCAATTGCTTCAAACATATCCTACCACAATGCC
66 AACTCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCC
* * *
55098612 ATTAATGCACATACAAGCTCATCACATAGGACTATCAAAATTCAAGCATTATCAAAAGATCAAAG
131 ATTAATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
55098677 CTACCATATCCAAGTAATCATATATG
196 CTACCATATCCAAGTAATCATATATG
* * * *
55098703 AGTATAACAACCTATGTATTCATAAATTATTCAAATATGGTTCTTCATTCACGTTTAACATTCCA
1 AGCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTCCA
* *
55098768 AACTCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCTTACCACAATTCC
66 AACTCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCC
* *
55098833 ATTAATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCTAAATATCAAAG
131 ATTAATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
55098898 CTACCATATCCAAGTAATCATATATG
196 CTACCATATCCAAGTAATCATATATG
55098924 AGCATAACA
1 AGCATAACA
55098933 TTGCCTATTT
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
221 214 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (221 bp):
AGCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTCCA
AACTCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCC
ATTAATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
CTACCATATCCAAGTAATCATATATG
Found at i:55101864 original size:20 final size:19
Alignment explanation
Indices: 55101831--55101877 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
55101821 TCAAGAACTA
*
55101831 TTTTACTTAGTAAACTATGG
1 TTTTATTTAGTAAA-TATGG
*
55101851 TTTTTATTTA-TAAATCTGG
1 -TTTTATTTAGTAAATATGG
55101870 TTTTATTT
1 TTTTATTT
55101878 GGGAGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 4 0.17
21 8 0.33
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTATTTAGTAAATATGG
Found at i:55111668 original size:20 final size:19
Alignment explanation
Indices: 55111635--55111681 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
55111625 TCGAGAACCA
*
55111635 TTTTACTTAGTAAATTATGG
1 TTTTATTTAGTAAA-TATGG
*
55111655 TTTTTATTTA-TAAATCTGG
1 -TTTTATTTAGTAAATATGG
55111674 TTTTATTT
1 TTTTATTT
55111682 GGGAGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 4 0.17
20 4 0.17
21 8 0.33
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (19 bp):
TTTTATTTAGTAAATATGG
Found at i:55112853 original size:21 final size:22
Alignment explanation
Indices: 55112824--55112865 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
55112814 AAACATATGC
55112824 AATTGAAG-TTCAAATGATTTGT
1 AATTGAAGTTTCAAATG-TTTGT
55112846 AATT-AAGTTTCAAATGTTTG
1 AATTGAAGTTTCAAATGTTTG
55112866 CCTATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (22 bp):
AATTGAAGTTTCAAATGTTTGT
Found at i:55115150 original size:17 final size:17
Alignment explanation
Indices: 55115130--55115171 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
55115120 CGATGATAAA
55115130 GAGTTGTCATTGATATG
1 GAGTTGTCATTGATATG
55115147 GAGTTGTCATTGATATG
1 GAGTTGTCATTGATATG
55115164 GAG-TGTCA
1 GAGTTGTCA
55115172 AAATCAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (17 bp):
GAGTTGTCATTGATATG
Found at i:55116937 original size:38 final size:38
Alignment explanation
Indices: 55116840--55116979 Score: 149
Period size: 38 Copynumber: 3.7 Consensus size: 38
55116830 AAGAGACATA
* * *
55116840 TACTGGTCCTTTGGGGCGACACCTTGACGACAGCTAT-
1 TACTGGTCCTTTGGGGCGACACCGTGACGACGGTTATC
* *
55116877 TGACTGAT-CTTTCGGGGCGACACCGTGACAACGGTTATC
1 T-ACTGGTCCTTT-GGGGCGACACCGTGACGACGGTTATC
* * *
55116916 TACTGGTCCTTTGGGGTGACACTGTGACGACGATTATC
1 TACTGGTCCTTTGGGGCGACACCGTGACGACGGTTATC
***
55116954 TACTGGTCCTTCAAGGCGACACCGTG
1 TACTGGTCCTTTGGGGCGACACCGTG
55116980 TAAACGGTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 5 0.06
38 74 0.88
39 5 0.06
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (38 bp):
TACTGGTCCTTTGGGGCGACACCGTGACGACGGTTATC
Found at i:55116972 original size:76 final size:76
Alignment explanation
Indices: 55116840--55116987 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 76
55116830 AAGAGACATA
* **
55116840 TACTGGTCCTTTGGGGCGACACCTTGACGACAGCTATTGACTGATCTTTCGGGGCGACACCGTG-
1 TACTGGTCCTTTGGGGCGACACCTTGACGACAGCTATTGACTGATCCTTCAAGGCGACACCGTGT
55116904 ACAACGGTTATC
66 A-AACGGTTATC
* * *
55116916 TACTGGTCCTTTGGGGTGACA-CTGTGACGAC-GATTATCT-ACTGGTCCTTCAAGGCGACACCG
1 TACTGGTCCTTTGGGGCGACACCT-TGACGACAG-CTAT-TGACTGATCCTTCAAGGCGACACCG
55116978 TGTAAACGGT
63 TGTAAACGGT
55116988 ATATAGGTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
75 3 0.05
76 57 0.92
77 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (76 bp):
TACTGGTCCTTTGGGGCGACACCTTGACGACAGCTATTGACTGATCCTTCAAGGCGACACCGTGT
AAACGGTTATC
Found at i:55126313 original size:9 final size:9
Alignment explanation
Indices: 55126285--55126322 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
55126275 AGTCCTCTTT
55126285 AAAATT-TA
1 AAAATTATA
55126293 AAAATTATTA
1 AAAATTA-TA
*
55126303 AAAATCATA
1 AAAATTATA
55126312 AAAATTATA
1 AAAATTATA
55126321 AA
1 AA
55126323 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 6 0.23
9 12 0.46
10 8 0.31
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:55127245 original size:17 final size:16
Alignment explanation
Indices: 55127164--55127245 Score: 56
Period size: 17 Copynumber: 4.9 Consensus size: 16
55127154 GGAGCTCGCA
* *
55127164 GGTGAGCTCTCAAGTTT
1 GGTGAGCTCGCAA-TCT
*
55127181 GGTGAGCTTGCAATCTT
1 GGTGAGCTCGCAATC-T
* *
55127198 GTTGAGCTCGTAATTCT
1 GGTGAGCTCGCAA-TCT
* * *
55127215 GGAGAGGTCACAATGCT
1 GGTGAGCTCGCAAT-CT
55127232 GGTGAGCTCGCAAT
1 GGTGAGCTCGCAAT
55127246 TCGCACTATT
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
16 2 0.04
17 44 0.92
18 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (16 bp):
GGTGAGCTCGCAATCT
Found at i:55128659 original size:2 final size:2
Alignment explanation
Indices: 55128652--55128676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55128642 CGATTCACAG
55128652 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
55128677 CTTGACAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55129945 original size:8 final size:8
Alignment explanation
Indices: 55129932--55129958 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
55129922 TTTAAAGGGC
55129932 AAAATGGT
1 AAAATGGT
55129940 AAAATGGT
1 AAAATGGT
55129948 AAAATGGT
1 AAAATGGT
55129956 AAA
1 AAA
55129959 TAAAGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (8 bp):
AAAATGGT
Found at i:55134681 original size:20 final size:20
Alignment explanation
Indices: 55134656--55134696 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
55134646 TGTTTTAAAG
*
55134656 TTACGATTTTATGGTAATGC
1 TTACGATTTTATGATAATGC
55134676 TTACGATTTTATGATAATGC
1 TTACGATTTTATGATAATGC
55134696 T
1 T
55134697 CTGTAACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (20 bp):
TTACGATTTTATGATAATGC
Found at i:55144835 original size:276 final size:276
Alignment explanation
Indices: 55144244--55145068 Score: 1148
Period size: 276 Copynumber: 3.0 Consensus size: 276
55144234 ACATTACGAT
* * * *
55144244 AAATCGATAC-AAGGAACAGATTGAACGGGACTCAATTTCAAACTCGAGATCAAATTAAAATTTC
1 AAATCGATACGAA-GAACAGATTGAACGGGACTC-GTTTCAAACTAGGGATCAAATTAAAATTTT
* *
55144308 CAGCAAAAGAAGT-TGAAGA-TTTTATGAAAAGGAAATAAGGGAATAACAAAAAAAGATGTATTT
64 CAGCAAAAGAA-TATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTT
* * * * *
55144371 AAATAAGAGAAAAGAGAAATTT-TAATTAAGGTTGGAAAGAAGTAAAAATCCACATGTAATTAAG
128 AAAGAAGAGAAAAGAG-AATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGG
* * * *
55144435 AAAATGGATTAAATGGTTAGGGTTTCAGAAATTTAAAGGGTTGAATGGTAAAATACTCATTTTTG
192 AAAATGGATTAAAT-GTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTTTTTG
55144500 TCT-ACATT--AAAAAAAAGAG
256 -CTGACATTGAAAAAAAAAGAG
* * * *
55144519 AAATCGATACGAGGAACAAATTGAATGGGACTTGGTTTCAAACTAGGGATCAAATTAAAATTTTC
1 AAATCGATACGAAGAACAGATTGAACGGGAC-TCGTTTCAAACTAGGGATCAAATTAAAATTTTC
* *
55144584 AACAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGAGGTATTTAA
65 AGCAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAA
* *
55144649 AGAAGAGAAAAAAGAATTTCTAATTTGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
130 AGAAGAGAAAAGAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
*
55144714 ATGGATTAAATATTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTTTTTGCTGA
195 ATGGATTAAATGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTTTTTGCTGA
55144779 CATTGAAAAAAAAAGAG
260 CATTGAAAAAAAAAGAG
* * * *
55144796 AAATCAATACGAAGAACGGATTAAACGGGACTCGTTTCAAACTTGGGATCAAATTAAAATTTTCA
1 AAATCGATACGAAGAACAGATTGAACGGGACTCGTTTCAAACTAGGGATCAAATTAAAATTTTCA
* * * *
55144861 GCAAAAGAAGATGAAGATTTTTATGAAAAAGAAATGAGGGAATAATAGAAAAAGATGCATTTAAA
66 GCAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAAA
* * * *
55144926 GAGGAGAAAAGAGAAATTCTAATTAGGGTTGAAAAGGAGTAGAAATGCACATGTAATTAGGAAAA
131 GAAGAGAAAAGAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAAA
* *
55144991 TGGATTAAATTGTTAGGGTTTAA-AAATTTAAGGGG-TAAATGGTAAAATA-CTCTTCTTTGCTG
196 TGGATTAAA-TGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTT-TTTGCTG
55145053 ACATTGAAAAATAAAA
259 ACATTGAAAAA-AAAA
55145069 AGTGGGGGAG
Statistics
Matches: 492, Mismatches: 47, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
274 7 0.01
275 154 0.31
276 283 0.58
277 48 0.10
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (276 bp):
AAATCGATACGAAGAACAGATTGAACGGGACTCGTTTCAAACTAGGGATCAAATTAAAATTTTCA
GCAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAAA
GAAGAGAAAAGAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAAA
TGGATTAAATGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTTTTTGCTGAC
ATTGAAAAAAAAAGAG
Found at i:55147908 original size:6 final size:6
Alignment explanation
Indices: 55147897--55147927 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
55147887 TTTTGTCTCC
55147897 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
55147928 GTCCCAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:55151273 original size:39 final size:39
Alignment explanation
Indices: 55151230--55151309 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
55151220 CAACCTGTCC
55151230 TTGTTTCCATTTCTTACCAAACCTATAATGCTGTTCCAA
1 TTGTTTCCATTTCTTACCAAACCTATAATGCTGTTCCAA
55151269 TTGTTTCCATTTCTTACCAAACCTATAATGCTGTTCCAA
1 TTGTTTCCATTTCTTACCAAACCTATAATGCTGTTCCAA
55151308 TT
1 TT
55151310 TAGACAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (39 bp):
TTGTTTCCATTTCTTACCAAACCTATAATGCTGTTCCAA
Found at i:55152806 original size:171 final size:174
Alignment explanation
Indices: 55152507--55152852 Score: 455
Period size: 171 Copynumber: 2.0 Consensus size: 174
55152497 TCACGAAATC
* * * *
55152507 TTGTCCATTTAAGGTGACTGCTAAAACTTGTGAACTTTAAGGTGGTTGCGGAATCGAGGGTTGTT
1 TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGAAATCGAAGGTTGTT
* * * * *
55152572 ACAAATGTGGTATAACACATTTGGATCCAGCAACCGGGTCAGATTTGGGGTGTTACACAATATT-
66 ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTC
* *
55152636 TCCCATTTTTTT-CTTTTAACATTGTAATACAAGTTTTAAGCTT
131 CCCCATTTTTTTCCTCTTAACATTGTAATACAAGTTTTAAGCTT
* ** *
55152679 TTGTCCATTTAAGTTGGTTGCTAAAACTCGTGAACTTTAAGGTGGCTGTGAAAT-GAAGGTTGTT
1 TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGAAATCGAAGGTTGTT
* * * ** *
55152743 ACAAATGTGGTATCATATATTTGAATCAAGCAATTAGGTCAGATTTGAGGCGTTATACAATATTC
66 ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTC
* *
55152808 CCCCTTTTTTTTCCCTCTTAATATTGTAATACAAGTTTTAAGCTT
131 CCCCATTTTTTT-CCTCTTAACATTGTAATACAAGTTTTAAGCTT
55152853 AAAAAAATTG
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
171 62 0.42
172 57 0.39
174 29 0.20
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (174 bp):
TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGAAATCGAAGGTTGTT
ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTC
CCCCATTTTTTTCCTCTTAACATTGTAATACAAGTTTTAAGCTT
Found at i:55153408 original size:14 final size:14
Alignment explanation
Indices: 55153386--55153419 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55153376 CATTGTTCTC
*
55153386 ATTTTAACAAATAT
1 ATTTGAACAAATAT
55153400 ATTTGAACAAATAT
1 ATTTGAACAAATAT
55153414 AGTTTG
1 A-TTTG
55153420 TAATCTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (14 bp):
ATTTGAACAAATAT
Found at i:55158227 original size:14 final size:14
Alignment explanation
Indices: 55158208--55158236 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55158198 GTATTCCAGT
55158208 ATTATACAGGTCAA
1 ATTATACAGGTCAA
55158222 ATTATACAGGTCAA
1 ATTATACAGGTCAA
55158236 A
1 A
55158237 ATGGGCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
ATTATACAGGTCAA
Found at i:55158448 original size:6 final size:6
Alignment explanation
Indices: 55158437--55158461 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55158427 TTCACGTTCT
55158437 CCTCTC CCTCTC CCTCTC CCTCTC C
1 CCTCTC CCTCTC CCTCTC CCTCTC C
55158462 TTCGTTGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCTC
Found at i:55161148 original size:30 final size:30
Alignment explanation
Indices: 55161112--55161168 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
55161102 TTCATATCAG
*
55161112 AAACTAAAAAATTCTAACTATAGAAAAATA
1 AAACTAAAAAATTCCAACTATAGAAAAATA
*
55161142 AAACTAAAAAATTCCGACTATAGAAAA
1 AAACTAAAAAATTCCAACTATAGAAAA
55161169 CTATGTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.21
Consensus pattern (30 bp):
AAACTAAAAAATTCCAACTATAGAAAAATA
Found at i:55166568 original size:25 final size:25
Alignment explanation
Indices: 55166509--55166621 Score: 113
Period size: 25 Copynumber: 4.6 Consensus size: 25
55166499 ATTCATGTAC
* * *
55166509 GCTCATACGAGCTGTA-AACAGTAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
55166533 GCTCTTTCGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
55166558 GCTCATACGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* * * *
55166583 GGTCATGCGAGCT-AAGTATCGAGAA
1 GCTCATACGAGCTGAA-TAACGGGAA
*
55166608 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
55166622 TGGTGTGTCC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
24 15 0.21
25 57 0.79
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGGAA
Found at i:55166945 original size:15 final size:16
Alignment explanation
Indices: 55166925--55166958 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
55166915 TATATGAATG
55166925 AATATAACTCA-ATTC
1 AATATAACTCATATTC
*
55166940 AATATAATTCATATTC
1 AATATAACTCATATTC
55166956 AAT
1 AAT
55166959 TTAGTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAACTCATATTC
Found at i:55166979 original size:30 final size:30
Alignment explanation
Indices: 55166943--55167002 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
55166933 TCAATTCAAT
55166943 ATAATTCATATTCAATTTAGTCCAACACAC
1 ATAATTCATATTCAATTTAGTCCAACACAC
55166973 ATAATTCATATTCAATTTAGTCCAACACAC
1 ATAATTCATATTCAATTTAGTCCAACACAC
55167003 TTTTTTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (30 bp):
ATAATTCATATTCAATTTAGTCCAACACAC
Done.