Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 408 of 438
Found at i:126873705 original size:45 final size:45
Alignment explanation
Indices: 126873610--126873871 Score: 168
Period size: 46 Copynumber: 5.8 Consensus size: 45
126873600 ACCAGAAATA
* * *
126873610 AGTAAGACCATAGCTGAAAGACACTATGGCATCACGATTTAGACG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCACGATTCAAACG
* * *
126873655 AGTAAGACCATAGTTGAAAGACGCTATGGCATCGCGATTCAAATG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCACGATTCAAACG
* * * * * * * ** *
126873700 TGTAAGACTATGGTTGAAAGATACCATGGCAACATGACAGCAAATG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCACGA-TTCAAACG
* * * * * * *
126873746 AATAAGACCATGGTTGAAAGATACCATGGCAAT-ATGACAGT-AAATG
1 AGTAAGACCATAGTTGAAAGACACTATGGC-ATCACG--ATTCAAACG
* * * * * * ** *
126873792 AATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCACGAT-TCAAACG
*
126873838 AGTAAGACCATAGTTGAAACACACTATGGCATCA
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCA
126873872 TGTCGAAGAT
Statistics
Matches: 178, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 68 0.38
46 107 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACACTATGGCATCACGATTCAAACG
Found at i:126873759 original size:46 final size:46
Alignment explanation
Indices: 126873702--126873891 Score: 247
Period size: 46 Copynumber: 4.2 Consensus size: 46
126873692 TTCAAATGTG
* *
126873702 TAAGACTATGGTTGAAAGATACCATGGCAACATGACAGCAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* *
126873748 TAAGACCATGGTTGAAAGATACCATGGCAATATGACAGTAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* *
126873794 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * * * * * *
126873840 TAAGACCATAGTTGAAACACACTATGGCATCATGTC-GAAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
126873885 TAAGACC
1 TAAGACC
126873892 GTGGATGGGA
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
45 13 0.10
46 114 0.90
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:126873867 original size:92 final size:92
Alignment explanation
Indices: 126873654--126873868 Score: 274
Period size: 92 Copynumber: 2.3 Consensus size: 92
126873644 CGATTTAGAC
* * ** *
126873654 GAGTAAGACCATAGTTGAAAGACGCTATGGC-ATCGCGATTCAAATGTGTAAGACTATGGTTGAA
1 GAGTAAGACCATAGTTGAAAGACACTATGGCAATCGCGAGTCAAATGAATAAGACCATGGTTGAA
*
126873718 AGATACCATGGCAACATGACAGCAAAT
66 AGATACCATGGCAACATGACAGAAAAT
* * * * *
126873745 GAATAAGACCATGGTTGAAAGATACCATGGCAATATGAC-AGT-AAATGAATAAGACCATGGTTG
1 GAGTAAGACCATAGTTGAAAGACACTATGGCAAT-CG-CGAGTCAAATGAATAAGACCATGGTTG
*
126873808 AAAGATACCATGGCAACATGATAGAAAAT
64 AAAGATACCATGGCAACATGACAGAAAAT
*
126873837 GAGTAAGACCATAGTTGAAACACACTATGGCA
1 GAGTAAGACCATAGTTGAAAGACACTATGGCA
126873869 TCATGTCGAA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
91 26 0.25
92 74 0.71
93 3 0.03
94 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
GAGTAAGACCATAGTTGAAAGACACTATGGCAATCGCGAGTCAAATGAATAAGACCATGGTTGAA
AGATACCATGGCAACATGACAGAAAAT
Found at i:126875426 original size:46 final size:46
Alignment explanation
Indices: 126875359--126875529 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
126875349 GGGCATCCGG
*
126875359 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTTTGA
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTATGA
* * *
126875405 ACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATATGA
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TATGA
* * **
126875452 ACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGCCTGA
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTATGA
* * *
126875498 GCTCGTTGAGTTGAGTCCGACTTCGCTTATGG
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
126875530 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 55 0.54
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTATGA
Found at i:126877901 original size:68 final size:64
Alignment explanation
Indices: 126877663--126877915 Score: 185
Period size: 68 Copynumber: 3.9 Consensus size: 64
126877653 TAGTTCGGCT
* * * * * *
126877663 TCTTGTACACATG--GTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCT
1 TCTTGTACACATGATGTGCACA-T-AGCACCACACATGTGACCTAGCTACATATATCCCGTAGCT
126877725 C
64 C
* * * * *
126877726 TCTTGT-CTACATGGTGTCCTTCACCT-GAACCACGCATGTGACCTAGCTACATATATCCCGTAG
1 TCTTGTAC-ACATGATG---TGCACATAGCACCACACATGTGACCTAGCTACATATATCCCGTAG
126877789 CTC
62 CTC
* * * * **
126877792 TCTTGTACACATGATGTGCACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAG
1 TCTTGTACACATGATGTGCACATAGCACCACACATGTGACCTAGCTACAT-AT-A--TCCCGTAG
126877857 CTC
62 CTC
* *
126877860 TCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTATATACTATC
1 TCTTGTACACATGATGTGCACAT-AGCACCACACATGTGACCTAGCTACATA-TATC
126877916 TGTATCATCC
Statistics
Matches: 152, Mismatches: 23, Indels: 28
0.75 0.11 0.14
Matches are distributed among these distances:
62 1 0.01
63 16 0.11
64 22 0.14
65 25 0.16
66 28 0.18
67 5 0.03
68 55 0.36
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
TCTTGTACACATGATGTGCACATAGCACCACACATGTGACCTAGCTACATATATCCCGTAGCTC
Found at i:126882032 original size:13 final size:13
Alignment explanation
Indices: 126882014--126882042 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
126882004 ATTAAAGAAA
126882014 ATATTATTATATT
1 ATATTATTATATT
126882027 ATATTATTATATT
1 ATATTATTATATT
126882040 ATA
1 ATA
126882043 ATAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:126882100 original size:21 final size:21
Alignment explanation
Indices: 126882076--126882116 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
126882066 CTAGACAAAG
126882076 AGAGAAACAA-AGAAACGAAAC
1 AGAGAAACAATAG-AACGAAAC
*
126882097 AGAGAAAGAATAGAACGAAA
1 AGAGAAACAATAGAACGAAA
126882117 AAGAAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.10, G:0.22, T:0.02
Consensus pattern (21 bp):
AGAGAAACAATAGAACGAAAC
Found at i:126882132 original size:21 final size:21
Alignment explanation
Indices: 126882076--126882132 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
126882066 CTAGACAAAG
* *
126882076 AGAGAAA-CAAAGAAACGAAAC
1 AGAGAAAGAAAAG-AACGAAAA
*
126882097 AGAGAAAGAATAGAACGAAAA
1 AGAGAAAGAAAAGAACGAAAA
126882118 AGA-AAAGAGAAAGAA
1 AGAGAAAGA-AAAGAA
126882133 AAGAAGGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.17
21 22 0.73
22 3 0.10
ACGTcount: A:0.68, C:0.07, G:0.23, T:0.02
Consensus pattern (21 bp):
AGAGAAAGAAAAGAACGAAAA
Found at i:126884226 original size:2 final size:2
Alignment explanation
Indices: 126884219--126884252 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
126884209 TTATTATTTA
126884219 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
126884253 GTAGTAGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126884675 original size:12 final size:12
Alignment explanation
Indices: 126884658--126884682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
126884648 GCCGACTACT
126884658 GTTACTGTTACC
1 GTTACTGTTACC
126884670 GTTACTGTTACC
1 GTTACTGTTACC
126884682 G
1 G
126884683 ATTCGGTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:126884736 original size:51 final size:51
Alignment explanation
Indices: 126884658--126884773 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
126884648 GCCGACTACT
* * * **
126884658 GTTACTGTTACCGTTACTGTTACCGATTCGGTC-CTTTTTGTGTCGAATACG
1 GTTACTGTTACTGTTACCGTTACCGATTCAG-CACTTTGGGTGTCGAATACG
* * *
126884709 GTTACTGTTACTGTTACCGTTATCGATTCAGCACTTTGGGTGTTGAATACT
1 GTTACTGTTACTGTTACCGTTACCGATTCAGCACTTTGGGTGTCGAATACG
*
126884760 GTTACTGTTCCTGT
1 GTTACTGTTACTGT
126884774 AACAGCCTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 1 0.02
51 54 0.98
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (51 bp):
GTTACTGTTACTGTTACCGTTACCGATTCAGCACTTTGGGTGTCGAATACG
Found at i:126887049 original size:6 final size:6
Alignment explanation
Indices: 126887034--126887064 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
126887024 CTGTGTACCA
*
126887034 TACTGC TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
126887065 CCGGTTTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:126887261 original size:72 final size:72
Alignment explanation
Indices: 126887169--126887435 Score: 236
Period size: 72 Copynumber: 3.6 Consensus size: 72
126887159 AAAAGTATAA
* * *
126887169 AATAACTGATTATTACTGAATAATTGACAGTTACTGGAT-ATTAGACTGTTACTGAATAACTGAA
1 AATAATTGA-TATTACTGAATAATTGACTGTTACTGGATAAAT-GACTGTTACTGAATAACTGAA
126887233 -TATTACTG
64 TTATTACTG
* * * *
126887241 AATAATTGATCATTACTGAATAACTGATTGTTACTGAATAAATGACTGTTACTGAATAACTTAAT
1 AATAATTGAT-ATTACTGAATAATTGACTGTTACTGGATAAATGACTGTTACTGAATAACTGAAT
*
126887306 TGTTACTG
65 TATTACTG
* * *
126887314 AAT-ATCTGATTTTACTGAATAATTGACTGTTACTGGATAACCGATAAATTGATCGATACTGAAT
1 AATAAT-TGATATTACTGAATAATTGACTGTTACTGGATAA---AT-GACTG-T---TACTGAAT
* *
126887378 AACTG-GTTATTATTG
57 AACTGAATTATTACTG
* * * *
126887393 AATAATTGATTGTTACCGAATAACTGACTGTTACTGAATAAAT
1 AATAATTGA-TATTACTGAATAATTGACTGTTACTGGATAAAT
126887436 AATTGTTCTG
Statistics
Matches: 159, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
71 1 0.01
72 80 0.50
73 16 0.10
75 2 0.01
76 3 0.02
77 3 0.02
79 13 0.08
80 41 0.26
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAATTGATATTACTGAATAATTGACTGTTACTGGATAAATGACTGTTACTGAATAACTGAATT
ATTACTG
Found at i:126887442 original size:18 final size:18
Alignment explanation
Indices: 126887169--126887446 Score: 193
Period size: 18 Copynumber: 15.1 Consensus size: 18
126887159 AAAAGTATAA
*
126887169 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* **
126887187 AATAATTGACAGTTACTG
1 AATAACTGATTGTTACTG
* * *
126887205 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* *
126887223 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
126887241 AATAATTGATCATTACTG
1 AATAACTGATTGTTACTG
126887259 AATAACTGATTGTTACTG
1 AATAACTGATTGTTACTG
* *
126887277 AATAAATGACTGTTACTG
1 AATAACTGATTGTTACTG
*
126887295 AATAACTTAATTGTTACTG
1 AATAAC-TGATTGTTACTG
*
126887314 AATATCTGATT-TTACTG
1 AATAACTGATTGTTACTG
* *
126887331 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
126887349 GATAACCGATAAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
126887375 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
126887393 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
126887411 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
126887429 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
126887446 A
1 A
126887447 GTGTTAATGA
Statistics
Matches: 202, Mismatches: 46, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
17 21 0.10
18 145 0.72
19 17 0.08
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:126889661 original size:48 final size:48
Alignment explanation
Indices: 126889542--126889695 Score: 236
Period size: 48 Copynumber: 3.2 Consensus size: 48
126889532 TATGGTCTTA
126889542 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
126889592 CACATATCACATATCGATGCCATAGCCCAGCTGTGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
** * *
126889640 CACATATCACATATTAATGCCATAGCCCAACTATGGTTTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
126889688 CACATATC
1 CACATATC
126889696 TCACTGATGC
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
48 52 0.54
49 38 0.40
50 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:126889924 original size:50 final size:51
Alignment explanation
Indices: 126889825--126889950 Score: 200
Period size: 50 Copynumber: 2.5 Consensus size: 51
126889815 CACTGATCAA
* * * *
126889825 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
126889876 GTAGCCGAAGCTATCGCTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
126889926 GTAGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
126889951 AGTTGCCATA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 46 0.67
51 23 0.33
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:126892131 original size:22 final size:21
Alignment explanation
Indices: 126892073--126892131 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
126892063 TTAATAATAT
126892073 CATATAAAT-ATATATTAAAA
1 CATATAAATAATATATTAAAA
* * *
126892093 TAAATATATAATAATATTAAAA
1 CATATAAATAAT-ATATTAAAA
*
126892115 GCATATACATAATATAT
1 -CATATAAATAATATAT
126892132 ACATAATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 6 0.20
21 2 0.07
22 13 0.43
23 9 0.30
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
CATATAAATAATATATTAAAA
Found at i:126892190 original size:10 final size:11
Alignment explanation
Indices: 126892117--126892199 Score: 82
Period size: 11 Copynumber: 7.5 Consensus size: 11
126892107 TATTAAAAGC
126892117 ATATACATAAT
1 ATATACATAAT
126892128 ATATACATAAT
1 ATATACATAAT
* *
126892139 ATACAAAACAAAAT
1 AT---ATACATAAT
*
126892153 ATACACATAAT
1 ATATACATAAT
126892164 ATATTA-A-AAT
1 ATA-TACATAAT
126892174 ATATACATAAT
1 ATATACATAAT
126892185 AT-TACATAAT
1 ATATACATAAT
126892195 ATATA
1 ATATA
126892200 TATATATAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 2 0.03
10 17 0.28
11 31 0.52
12 1 0.02
14 9 0.15
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATACATAAT
Found at i:126892195 original size:21 final size:21
Alignment explanation
Indices: 126892120--126892199 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 21
126892110 TAAAAGCATA
126892120 TACATAATATATACATAATAT
1 TACATAATATATACATAATAT
* * *
126892141 ACAAAACAAAATATACACATAATATAT
1 ----TACATAATATATACAT-A-ATAT
126892168 TA-A-AATATATACATAATAT
1 TACATAATATATACATAATAT
126892187 TACATAATATATA
1 TACATAATATATA
126892200 TATATATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 6 0.13
20 2 0.04
21 18 0.39
22 1 0.02
23 1 0.02
25 13 0.28
26 1 0.02
27 4 0.09
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
TACATAATATATACATAATAT
Found at i:126892198 original size:23 final size:21
Alignment explanation
Indices: 126892125--126892209 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
126892115 GCATATACAT
*
126892125 AATATATACATAATATACAAAACAA
1 AATATATACATAATAT----AATAA
* *
126892150 AATATACACATAATATATTAA
1 AATATATACATAATATAATAA
* * *
126892171 AATATATACATAATATTACAT
1 AATATATACATAATATAATAA
*
126892192 AATATATATAT-ATATAAT
1 AATATATACATAATATAAT
126892210 GTTTAAAAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.10
21 29 0.59
25 15 0.31
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATATACATAATATAATAA
Found at i:126893835 original size:44 final size:44
Alignment explanation
Indices: 126893770--126893880 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
126893760 TCACTGCTCT
* *
126893770 ACTGCAACTTTAGAGAGATAAGGCTTGTAACTTCGACCTACTCC
1 ACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCGACCTACTCC
* * ** * *
126893814 ATTGCAACTTCAGGGAGATAAGTCTTGTAGTTTCGATCTTCTCC
1 ACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCGACCTACTCC
* *
126893858 ACTGAAACTTCAAGGAGATAAGG
1 ACTGCAACTTCAGGGAGATAAGG
126893881 TTAATGGCTT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCGACCTACTCC
Found at i:126893930 original size:88 final size:87
Alignment explanation
Indices: 126893875--126894056 Score: 274
Period size: 88 Copynumber: 2.1 Consensus size: 87
126893865 CTTCAAGGAG
*
126893875 ATAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTTAGGGAGAAAAGATTTGTAATTTCCAGC
1 ATAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTCAGGGAGAAAAGATTTGTAATTTCCAGC
126893940 CTGTTACCCTACTGCATAAGGGT
66 CTGTTACCCTACTGCA-AAGGGT
* * * * *
126893963 TTAAGGTTAATGGCTTCGATTTGCTCCACTGCAATTTCGGGGAGAAAAGATTTATAATTTTCAGC
1 ATAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTCAGGGAGAAAAGATTTGTAATTTCCAGC
*
126894028 TTGTTACCCTACTGCATAAGGGT
66 CTGTTACCCTACTGCA-AAGGGT
*
126894051 TTAAGG
1 ATAAGG
126894057 CCCATCTCCT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (87 bp):
ATAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTCAGGGAGAAAAGATTTGTAATTTCCAGC
CTGTTACCCTACTGCAAAGGGT
Found at i:126894128 original size:44 final size:44
Alignment explanation
Indices: 126894071--126894573 Score: 272
Period size: 44 Copynumber: 11.5 Consensus size: 44
126894061 TCTCCTTCGA
* *
126894071 TCTGTTTCTCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCAG
* * * * ** * * **
126894115 CCTATTACCCTACTGTTTATGGGGTTTAAGGCCCAT-CAACCTC-G
1 TCTGTTACCCTACTGCTTA-GGGGGTTAA-GATCTTGTAAATTCAG
* *
126894159 ATCTGTTTCCCTACTGCTTAGAGGGTTAAGATC-TGTAAATCTTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAA--TTCAG
* * * * * **
126894205 CCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CATCTTTG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAAT-TCAG
* * *
126894248 ATCTGTTTCACTACTGCTTAGGGGGTTAAGAT-TTAG-AAGTTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTT-GTAAATTCAG
* ** * ** ** *
126894292 CCTGTTACCCTACTATTTAGGGGTTTAAGGCCCTTCGT-CTTTGA-
1 TCTGTTACCCTACTGCTTAGGGGGTTAA-GATCTT-GTAAATTCAG
* * * *
126894336 TCTGCT-CCACTACTGCTTAGGGAGATAAGATC-TGT-AATTCGG
1 TCTGTTACC-CTACTGCTTAGGGGGTTAAGATCTTGTAAATTCAG
* * * *
126894378 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--CTTCAA
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTT-GTAAATTCAG
* * *
126894422 TCTGTTTCCCTACTGCTTAGGGGGTTAAGAT-ATGTAAATTTAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCAG
* * *
126894465 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--CTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTT-GTAAATTCAG
* *
126894508 ATATGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCAG
126894552 -CGTGTTACCCTACTGCTTAGGG
1 TC-TGTTACCCTACTGCTTAGGG
126894574 ATTTAAGGCC
Statistics
Matches: 333, Mismatches: 94, Indels: 65
0.68 0.19 0.13
Matches are distributed among these distances:
41 8 0.02
42 28 0.08
43 91 0.27
44 132 0.40
45 67 0.20
46 7 0.02
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCAG
Found at i:126894326 original size:87 final size:87
Alignment explanation
Indices: 126894022--126894586 Score: 726
Period size: 87 Copynumber: 6.5 Consensus size: 87
126894012 ATTTATAATT
* * * * *
126894022 TTCAGCTTGTTACCCTACTGCATAAGGGTTTAAGGCCCATC-TCCTTCGATCTGTTTCTCTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT-CTTCGATCTGTTTCCCTACTG
126894086 CTTAGGGGGTTAAGATCTTGTAAA
65 CTTAGGGGGTTAAGATC-TGTAAA
* * * ** *
126894110 TTCAGCCTATTACCCTACTGTTTATGGGGTTTAAGGCCCATCAACCTCGATCTGTTTCCCTACTG
1 TTCAGCCTGTTACCCTACTGCTTA-GGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTG
*
126894175 CTTAGAGGGTTAAGATCTGTAAA
65 CTTAGGGGGTTAAGATCTGTAAA
* * * *
126894198 TCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTTGATCTGTTTCACTACT
1 --TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACT
126894263 GCTTAGGGGGTTAAGAT-T-TAGAA
64 GCTTAGGGGGTTAAGATCTGTA-AA
** * *
126894286 GTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCCCTTCGTCTTTGATCTG-CTCCACTACT
1 -TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACT
* *
126894350 GCTTAGGGAGATAAGATCTGT-AA
64 GCTTAGGGGGTTAAGATCTGTAAA
* * * *
126894373 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
*
126894438 TTAGGGGGTTAAGATATGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* * * *
126894460 TTTAGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATATGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
126894525 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* *
126894547 TTCAGCGTGTTACCCTACTGCTTAGGGATTTAAGGCCCTT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTT
126894587 GTGAGTTCAT
Statistics
Matches: 419, Mismatches: 48, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
86 71 0.17
87 195 0.47
88 30 0.07
89 101 0.24
90 22 0.05
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (87 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
TTAGGGGGTTAAGATCTGTAAA
Found at i:126894427 original size:173 final size:171
Alignment explanation
Indices: 126894022--126894586 Score: 699
Period size: 173 Copynumber: 3.2 Consensus size: 171
126894012 ATTTATAATT
* * * * *
126894022 TTCAGCTTGTTACCCTACTGCATAAGGGTTTAAGGCCCATCTCCTTCGATCTGTTTCTCTACTGC
1 TTCAGC-TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCT-CTTCGATCTGTTTCACTACTGC
* * *
126894087 TTAGGGGGTTAAGATCTT-GTAAATTCAGCCTATTACCCTACTGTTTATGGGGTTTAAGGCCCAT
64 TTAGGGGGTTAAGATATTAG--AATTCAGCCTGTTACCCTACTGTTTA-GGGGTTTAAGGCCCTT
** *
126894151 CAACCTCGATCTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAA
126 CGTCTTCGATCTGTTTCCCTACTGCTTAG-GGGTTAAGATCTGTAAA
*
126894198 TCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTTGATCTGTTTCACTACT
1 --TTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTC-TCTTCGATCTGTTTCACTACT
*
126894263 GCTTAGGGGGTTAAGAT-TTAGAAGTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCCCTT
62 GCTTAGGGGGTTAAGATATTAGAA-TTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTT
* * *
126894327 CGTCTTTGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGT-AA
126 CGTCTTCGATCTGTTTCC-CTACTGCTTAGGG-GTTAAGATCTGTAAA
* * *
126894373 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTACTGC
1 TTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTC-TCTTCGATCTGTTTCACTACTGC
* * * *
126894438 TTAGGGGGTTAAGATATGTA-AATTTAGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG
64 TTAGGGGGTTAAGATAT-TAGAATTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCG
*
126894502 TCTTCGATATGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
128 TCTTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAA
* *
126894547 TTCAGCGTGTTACCCTACTGCTTAGGGATTTAAGGCCCTT
1 TTCAGC-TGTTACCCTACTGCTTAGGGGTTTAAGACCCTT
126894587 GTGAGTTCAT
Statistics
Matches: 342, Mismatches: 33, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
173 142 0.42
174 46 0.13
175 9 0.03
176 48 0.14
177 24 0.07
178 71 0.21
179 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (171 bp):
TTCAGCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCTCTTCGATCTGTTTCACTACTGCTT
AGGGGGTTAAGATATTAGAATTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCGTCT
TCGATCTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAA
Found at i:126906484 original size:16 final size:16
Alignment explanation
Indices: 126906460--126906508 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
126906450 GAAATGATTG
*
126906460 AATACATAAGTAAAT-T
1 AATAAATAA-TAAATAT
126906476 AATAAATAAATAAATAT
1 AATAAAT-AATAAATAT
126906493 AA-AAATAATAAA-AT
1 AATAAATAATAAATAT
126906507 AA
1 AA
126906509 AATGACAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 15 0.50
17 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAAATAATAAATAT
Found at i:126906943 original size:18 final size:19
Alignment explanation
Indices: 126906900--126906945 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
126906890 TAGCGTATAG
*
126906900 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
126906919 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
126906937 GTAATAATA
1 GTAATAATA
126906946 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:126907089 original size:9 final size:11
Alignment explanation
Indices: 126907066--126907148 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
126907056 TATTAAAAGC
126907066 ATATACATAAT
1 ATATACATAAT
126907077 ATATACATAAT
1 ATATACATAAT
* *
126907088 ATACAAAACAAAAT
1 AT---ATACATAAT
*
126907102 ATACACATAAT
1 ATATACATAAT
126907113 ATATTA-A-AAT
1 ATA-TACATAAT
*
126907123 AGATACATAAT
1 ATATACATAAT
*
126907134 AT-TACATAAA
1 ATATACATAAT
126907144 ATATA
1 ATATA
126907149 TATATATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
9 2 0.04
10 15 0.26
11 30 0.53
12 1 0.02
14 9 0.16
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.30
Consensus pattern (11 bp):
ATATACATAAT
Found at i:126907158 original size:46 final size:46
Alignment explanation
Indices: 126907074--126907177 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
126907064 GCATATACAT
*
126907074 AATATATACATAATA-TACAAAACAAAATATACACATAATATATTAA
1 AATAGATACATAATATTACAAAACAAAATATACACATAATAT-TTAA
* * * * *
126907120 AATAGATACATAATATTACATAA-AATATATATATATAATGTTTAA
1 AATAGATACATAATATTACAAAACAAAATATACACATAATATTTAA
126907165 AA-AGA-ACA-AATAT
1 AATAGATACATAATAT
126907178 ACGTAATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 5 0.10
43 3 0.06
44 3 0.06
45 6 0.12
46 28 0.55
47 6 0.12
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (46 bp):
AATAGATACATAATATTACAAAACAAAATATACACATAATATTTAA
Found at i:126924206 original size:39 final size:39
Alignment explanation
Indices: 126924147--126924272 Score: 200
Period size: 39 Copynumber: 3.2 Consensus size: 39
126924137 TACCTGAAAT
* *
126924147 CTAATTGAAGCAAAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
126924186 CTAACTGAAGCACAAAAGTGCTAAA-GTGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACG-GAAGCCCGAAGG
*
126924225 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
126924264 CTAATTGAA
1 CTAACTGAA
126924273 TCTCATCAGA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 79 0.98
40 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:126924256 original size:21 final size:21
Alignment explanation
Indices: 126924153--126924256 Score: 78
Period size: 21 Copynumber: 5.2 Consensus size: 21
126924143 AAATCTAATT
*
126924153 GAAGCAAAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
126924174 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
126924192 GAAGCACAAAAGTGCTAAA-G
1 GAAGCACAAAAGTGCTAAACG
** *
126924212 TGAAGC-CCGAAG-GCT-AACT
1 -GAAGCACAAAAGTGCTAAACG
*
126924231 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
126924252 GAAGC
1 GAAGC
126924257 CCGAAGGCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
18 15 0.24
19 14 0.23
20 13 0.21
21 20 0.32
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:126928251 original size:22 final size:22
Alignment explanation
Indices: 126928226--126928273 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
126928216 AGGTACTTAA
126928226 TCTTCATTTTTTAGCTTTAATC
1 TCTTCATTTTTTAGCTTTAATC
* * *
126928248 TCTTCGTTTTTTATCTTTAATT
1 TCTTCATTTTTTAGCTTTAATC
126928270 TCTT
1 TCTT
126928274 GGGTTCCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.65
Consensus pattern (22 bp):
TCTTCATTTTTTAGCTTTAATC
Found at i:126937805 original size:31 final size:30
Alignment explanation
Indices: 126937764--126937837 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
126937754 TTAACGACTC
* *
126937764 AGTGGCTAAAATGTTACAACACGAT-AACGTA
1 AGTGACTAAAATGTT--AACACGATAAACATA
**
126937795 AGTGACTAAAATG-TAACATTATAAACATA
1 AGTGACTAAAATGTTAACACGATAAACATA
126937824 AGTGACTAAAATGT
1 AGTGACTAAAATGT
126937838 AACCTAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 6 0.16
29 18 0.49
30 1 0.03
31 12 0.32
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (30 bp):
AGTGACTAAAATGTTAACACGATAAACATA
Found at i:126937858 original size:31 final size:29
Alignment explanation
Indices: 126937794--126937860 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
126937784 ACGATAACGT
* *
126937794 AAGTGACTAAAATGTAACATTATAAACAT
1 AAGTGACTAAAATGTAACATAATAAACAA
*
126937823 AAGTGACTAAAATGTAACCTAAAGTAAACAA
1 AAGTGACTAAAATGTAACAT-AA-TAAACAA
126937854 AAGTGAC
1 AAGTGAC
126937861 CATGGGTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 19 0.58
30 1 0.03
31 13 0.39
ACGTcount: A:0.52, C:0.12, G:0.13, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATAATAAACAA
Found at i:126939184 original size:20 final size:20
Alignment explanation
Indices: 126939159--126939220 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
126939149 AAGGTAGTAC
126939159 AATAGAACAAAGCAAAACAG
1 AATAGAACAAAGCAAAACAG
* *
126939179 AATAGAGCAGAA-CAAAACTG
1 AATAGAACA-AAGCAAAACAG
* * * *
126939199 AATGGTACAGAGCAGAACAG
1 AATAGAACAAAGCAAAACAG
126939219 AA
1 AA
126939221 ATGAACAGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 1 0.03
20 29 0.91
21 2 0.06
ACGTcount: A:0.56, C:0.15, G:0.21, T:0.08
Consensus pattern (20 bp):
AATAGAACAAAGCAAAACAG
Found at i:126941706 original size:38 final size:38
Alignment explanation
Indices: 126941663--126941739 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
126941653 TTTCAAGTTA
126941663 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * *
126941701 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
126941739 A
1 A
126941740 ATGAATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:126941762 original size:47 final size:48
Alignment explanation
Indices: 126941708--126941833 Score: 182
Period size: 48 Copynumber: 2.6 Consensus size: 48
126941698 GTTACATGTT
*
126941708 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCGATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * * *
126941755 TAACCGTGGCATATCCACTTAGTACCACATTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
*
126941803 TAATCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGTATATCCACTTAGCACCACGTT
126941834 TTTTCATTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 29 0.43
48 39 0.57
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:126944386 original size:6 final size:6
Alignment explanation
Indices: 126944375--126944399 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
126944365 AATACAATAA
126944375 AATTTC AATTTC AATTTC AATTTC A
1 AATTTC AATTTC AATTTC AATTTC A
126944400 TATTGAATAT
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTC
Found at i:126944411 original size:7 final size:7
Alignment explanation
Indices: 126944399--126944424 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
126944389 TTTCAATTTC
126944399 ATATTGA
1 ATATTGA
126944406 ATATTGA
1 ATATTGA
126944413 ATATTGA
1 ATATTGA
126944420 ATATT
1 ATATT
126944425 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (7 bp):
ATATTGA
Found at i:126944856 original size:17 final size:16
Alignment explanation
Indices: 126944834--126944876 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
126944824 GTGCGTCTCC
*
126944834 TTTCTTTCTCATTTTTT
1 TTTCTTTCTC-TTTCTT
*
126944851 TTTCTTTTTTCTTTCTT
1 TTTC-TTTCTCTTTCTT
126944868 TTTCTTTCT
1 TTTCTTTCT
126944877 TAGTTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTCTCTTTCTT
Found at i:126944859 original size:11 final size:11
Alignment explanation
Indices: 126944834--126944877 Score: 54
Period size: 10 Copynumber: 3.9 Consensus size: 11
126944824 GTGCGTCTCC
126944834 TTTCTTTCTCATT
1 TTTCTTTCT--TT
*
126944847 TTTTTTTCTTT
1 TTTCTTTCTTT
126944858 TTTCTTTC-TT
1 TTTCTTTCTTT
126944868 TTTCTTTCTT
1 TTTCTTTCTT
126944878 AGTTTGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.36
11 10 0.36
13 8 0.29
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:126950886 original size:2 final size:2
Alignment explanation
Indices: 126950874--126950911 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
126950864 TTAACATGGG
*
126950874 AT AT AT TT 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
126950912 GAATGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:126958044 original size:40 final size:39
Alignment explanation
Indices: 126957959--126958075 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 39
126957949 TTAAGTTACC
* * * * *
126957959 ATAGTGAATTAGGAACAAATCCTATCCACTTTATATATTT
1 ATAGTGAATCAGGAATAAATCCTATTCAATTTA-ATTTTT
126957999 ATAGTGAATCAGGAATAAATCCTATTCAATTTAATTTCTT
1 ATAGTGAATCAGGAATAAATCCTATTCAATTTAATTT-TT
* * * *
126958039 TTAGTGACTCATGAATAAATCCTATTCACTTTTAATT
1 ATAGTGAATCAGGAATAAATCCTATTCA-ATTTAATT
126958076 CTCGAGAAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
39 3 0.05
40 56 0.85
41 7 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (39 bp):
ATAGTGAATCAGGAATAAATCCTATTCAATTTAATTTTT
Found at i:126959024 original size:28 final size:28
Alignment explanation
Indices: 126958981--126959086 Score: 76
Period size: 28 Copynumber: 3.7 Consensus size: 28
126958971 GAAATCAGAG
126958981 TTAAT-TGGG-CATTAGCCCATATCAATA
1 TTAATCTGGGCCA-TAGCCCATATCAATA
*
126959008 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCCATAGCCCATAT-CAATA
* *
126959036 TCAGAGTATACTGGGCC-TAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCATAGCCCATATCAATA
* *
126959068 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCCATAGCCC
126959087 TATAACAACT
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
27 13 0.20
28 25 0.39
29 2 0.03
30 2 0.03
32 14 0.22
33 8 0.12
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (28 bp):
TTAATCTGGGCCATAGCCCATATCAATA
Found at i:126959119 original size:60 final size:60
Alignment explanation
Indices: 126958974--126959125 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 60
126958964 CTATTCAGAA
* *
126958974 ATCAGAGT-TAATTGGGCATTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTAT-ATTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAAT
* * * *
126959035 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAG-CCCTATAACAA-
1 ATCAGAGTATATTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCT-T-ACAAT
* *
126959095 CTC-GAGATATTTTGGGCCTTGCCCATATCAA
1 ATCAGAG-TATATTGGGCCTTGCCCATATCAA
126959126 CACAGTTAGC
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
59 7 0.09
60 49 0.64
61 19 0.25
62 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATATTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAAT
Found at i:126959554 original size:3 final size:3
Alignment explanation
Indices: 126959546--126959623 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
126959536 AAACATACTA
126959546 AAT AAT 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
126959594 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
126959624 CAAAACATCC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:126961591 original size:61 final size:61
Alignment explanation
Indices: 126961514--126961667 Score: 176
Period size: 60 Copynumber: 2.6 Consensus size: 61
126961504 CCCTATTCAG
* *
126961514 AAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-T-AC
1 AAATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAATATGGGCCATAG-CCCTATAAC
* *
126961574 AATATCAGAGTATACTGGGCC-TAGCCCATATCAGTATCAATATGGGCCGTAGCCCTATAAC
1 AA-ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATATGGGCCATAGCCCTATAAC
* *
126961635 AACTC-GAGATATATTGGGCCTT-GCCCATATCAA
1 AAATCAGAG-TATACTGGGCCTTAGCCCATATCAA
126961668 CATAGTTGGC
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
59 7 0.09
60 52 0.64
61 21 0.26
62 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (61 bp):
AAATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATATGGGCCATAGCCCTATAAC
Found at i:126964011 original size:3 final size:3
Alignment explanation
Indices: 126964003--126964047 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
126963993 AAACATACTA
126964003 AAT 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
126964048 CAAAACATCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:126966494 original size:31 final size:31
Alignment explanation
Indices: 126966459--126966565 Score: 189
Period size: 31 Copynumber: 3.5 Consensus size: 31
126966449 CTACATATAC
126966459 TGGGCCGAAGCCTTTTCATAAATCATATCAT
1 TGGGCCGAAGCCTTTTCATAAATCATATCAT
126966490 TGGGCCGAAGCCTTTTCATAAATCATATCAT
1 TGGGCCGAAGCCTTTTCATAAATCATATCAT
*
126966521 TGGGCCGAAGCCTTTTCATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAT
*
126966552 T-GGCCAAAGCCTTT
1 TGGGCCGAAGCCTTT
126966566 ACTGTAAGCG
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 12 0.16
31 62 0.84
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAT
Found at i:126966805 original size:24 final size:25
Alignment explanation
Indices: 126966778--126966854 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
126966768 GACTAGCCTC
*
126966778 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
126966802 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * *
126966827 TTTCAGTAAACTGGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
126966852 TTT
1 TTT
126966855 AGCATTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:126967812 original size:27 final size:27
Alignment explanation
Indices: 126967782--126967924 Score: 117
Period size: 27 Copynumber: 5.2 Consensus size: 27
126967772 GTAAATGTAC
*
126967782 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
126967809 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
126967837 AAAGTCAAGGGTATTTCTGTAATTGTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * **
126967865 AAATCAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** *
126967892 AAATTGAGGGTATTTCAGTAATTTCAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
126967919 AAACCA
1 AAACCA
126967925 GTAGTATTTT
Statistics
Matches: 89, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
27 61 0.69
28 14 0.16
29 14 0.16
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:126967932 original size:54 final size:54
Alignment explanation
Indices: 126967786--126967944 Score: 169
Period size: 54 Copynumber: 2.9 Consensus size: 54
126967776 ATGTACAAAC
* *
126967786 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTT-TGGTAA-TTTTAGAAAGT
* * * *
126967842 CAAGGGTATTTCTGTAATTGTGTAAATCAGGGGTATTTTGGTAATTTTATAAA-T
1 CAAGGGTATTTCAGTAATT-TGTAAACCAGTGGTATTTTGGTAATTTTAGAAAGT
** * *
126967896 TGAGGGTATTTCAGTAATTTCATAAACCAGTAGTATTTTGGTAATTTTA
1 CAAGGGTATTTCAGTAATTT-GTAAACCAGTGGTATTTTGGTAATTTTA
126967945 CAAACTAGAG
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 41 0.47
55 11 0.13
56 34 0.39
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTGTAAACCAGTGGTATTTTGGTAATTTTAGAAAGT
Found at i:126967949 original size:27 final size:26
Alignment explanation
Indices: 126967874--126967968 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
126967864 TAAATCAGGG
** *
126967874 GTATTTTGGTAATTTTATAAATTGAGG
1 GTATTTTGGTAATTTTATAAA-CCAGA
** *
126967901 GTATTTCAGTAATTTCATAAACCAGTA
1 GTATTTTGGTAATTTTATAAACCAG-A
* *
126967928 GTATTTTGGTAATTTTACAAACTAGA
1 GTATTTTGGTAATTTTATAAACCAGA
126967954 GGTATTTTGGTAATT
1 -GTATTTTGGTAATT
126967969 CTACCCTATA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (26 bp):
GTATTTTGGTAATTTTATAAACCAGA
Found at i:126968030 original size:27 final size:27
Alignment explanation
Indices: 126968000--126968091 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
126967990 GTAATTTCAC
** *
126968000 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
126968027 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
126968054 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
126968081 AATCGAGGGTA
1 AATCGAGGGTA
126968092 CTTTGGTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:126968116 original size:54 final size:53
Alignment explanation
Indices: 126967988--126968091 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
126967978 AGGGGTATTT
* ** * *
126967988 CAGTAATTTCACAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTTACAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
126968041 CAGTAATTCTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
1 CAGTAATT-T-TACAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
126968092 CTTTGGTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
53 8 0.18
54 35 0.80
55 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (53 bp):
CAGTAATTTTACAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
Found at i:126971933 original size:459 final size:458
Alignment explanation
Indices: 126971075--126971996 Score: 1583
Period size: 459 Copynumber: 2.0 Consensus size: 458
126971065 AATTCCATGT
*
126971075 TTTGCTCCTAAATTTCATCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
1 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
* *
126971140 AGTCTACCGCTTGACTGACTCAAGCCACTGCTAGGAGAGTTTCGATCAAACTCTAACTCTCCCCC
66 AGTCCACCACTTGACTGACTCAAGCCACTGCTAGGAGAGTTTCGATCAAACTCTAACTCTCCCCC
* * * *
126971205 ACGTGAGCAGCAAAATTGGTCGCCCATTGCGCGTACAGCAGCTTGAAACCGAGACCTCCAGACAG
131 ACGTGAGCAGCAAAATTGGTCACCCATTGCACGTACAGCAGCTCGAAACCGAGACCTCCAGACAC
* * *
126971270 CCACATACGCTGCTTACCGCTGCACTGAAGCTTCTCTCATGATATAATCTACTCACAATTAATTT
196 CCACATACGCTACTTACCACTGCACTGAAGCTCCTCTCATGATATAATCTACTCACAATTAATTT
* * * * *
126971335 TAAGACTTATCTGCTGCAGTCTAGGTTTATTTAAAAATAAAACAAAAACATTGCTACTTACCAGA
261 TAAGACTTATCTACTGCAGTCCAGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
* * *
126971400 CTCGAACCCCTACCCTTCAACTATACCACCCGTACCTTACCACCACGCCACTTGCTCGATTGTGT
326 CTCAAACCCCTACCCTTCAACTACACCACCCATACCTTACCACCACGCCACTTGCTCGATTGTGT
* * *
126971465 CTTCTTTCCTCCTGGGGTAATTATAAGGCCTCATTGCGACAATCTCTGGTTGTTAAAAAAAAATC
391 CTTCTTTCCTCCCGAGGTAATTATAAGGCCTCATTGCGACAATCCCTGGTTGTT-AAAAAAAATC
126971530 AACA
455 AACA
126971534 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
1 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
*
126971599 AGTCCACCACTTGACTGACTCAAGCCACTGCTAGGAGAGTTTCGGTCAAACTCTAACTCTCCCCC
66 AGTCCACCACTTGACTGACTCAAGCCACTGCTAGGAGAGTTTCGATCAAACTCTAACTCTCCCCC
* *
126971664 ACGTGAGCAGCAAAATTGGTCACCCATTGCATGTACAGCAGCTCGAAACCGAGACCTCCAGGCAC
131 ACGTGAGCAGCAAAATTGGTCACCCATTGCACGTACAGCAGCTCGAAACCGAGACCTCCAGACAC
*
126971729 CCACATACGCTACTTGCCACTGCACTGAAGCTCCTCTCATGATATAATCTACTCACAATTAATTT
196 CCACATACGCTACTTACCACTGCACTGAAGCTCCTCTCATGATATAATCTACTCACAATTAATTT
*
126971794 TAAGACTTATCTACTGCAGTCCCGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
261 TAAGACTTATCTACTGCAGTCCAGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
*
126971859 CTCAAACCCCTACCCTTCAACTACACCACCCATACCTTACCACCACGCCACTTGCTGGATTGTGT
326 CTCAAACCCCTACCCTTCAACTACACCACCCATACCTTACCACCACGCCACTTGCTCGATTGTGT
*
126971924 CTTCTTTCCTCCCGAGGTAATTATAAGGCCTCTTTGCGACAATCCCTGGTTGTTAAAAAAAATCA
391 CTTCTTTCCTCCCGAGGTAATTATAAGGCCTCATTGCGACAATCCCTGGTTGTTAAAAAAAATCA
126971989 ACA
456 ACA
126971992 TTTGC
1 TTTGC
126971997 GCACACTGGG
Statistics
Matches: 435, Mismatches: 28, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
458 19 0.04
459 416 0.96
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (458 bp):
TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
AGTCCACCACTTGACTGACTCAAGCCACTGCTAGGAGAGTTTCGATCAAACTCTAACTCTCCCCC
ACGTGAGCAGCAAAATTGGTCACCCATTGCACGTACAGCAGCTCGAAACCGAGACCTCCAGACAC
CCACATACGCTACTTACCACTGCACTGAAGCTCCTCTCATGATATAATCTACTCACAATTAATTT
TAAGACTTATCTACTGCAGTCCAGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
CTCAAACCCCTACCCTTCAACTACACCACCCATACCTTACCACCACGCCACTTGCTCGATTGTGT
CTTCTTTCCTCCCGAGGTAATTATAAGGCCTCATTGCGACAATCCCTGGTTGTTAAAAAAAATCA
ACA
Found at i:126972232 original size:3 final size:3
Alignment explanation
Indices: 126972224--126972315 Score: 184
Period size: 3 Copynumber: 30.7 Consensus size: 3
126972214 TAAACTAAAC
126972224 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
126972272 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
126972316 CAAAATATCC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:126978272 original size:13 final size:13
Alignment explanation
Indices: 126978254--126978279 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126978244 CACTTGATAA
126978254 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
126978267 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
126978280 TACAATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:126985571 original size:13 final size:13
Alignment explanation
Indices: 126985553--126985578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126985543 CACTTGATAA
126985553 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
126985566 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
126985579 TACTCTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:126985779 original size:25 final size:25
Alignment explanation
Indices: 126985751--126985830 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
126985741 AGCTCACACG
126985751 AGCTGAGAATCGATAAGCTCTTACA
1 AGCTGAGAATCGATAAGCTCTTACA
* * *
126985776 AGCTGAGAATCGGTAAGCTCTCACG
1 AGCTGAGAATCGATAAGCTCTTACA
*
126985801 AGCTGCA-AATC-AGTAAGCTCATACA
1 AGCTG-AGAATCGA-TAAGCTCTTACA
126985826 AGCTG
1 AGCTG
126985831 TGGTATGTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCTGAGAATCGATAAGCTCTTACA
Found at i:126988372 original size:44 final size:44
Alignment explanation
Indices: 126988318--126988409 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
126988308 TTGAAGTAAC
*
126988318 AGTAACAGTACAACACACAATGTGCCTCATCGACTTAAAGTCGA
1 AGTAACAGTACAACACACAATGTGCCTCATCGACTCAAAGTCGA
* ** * * *
126988362 AGTAACAGTACGACACTTAATTTGCCTTATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACAATGTGCCTCATCGACTCAAAGTCGA
126988406 AGTA
1 AGTA
126988410 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (44 bp):
AGTAACAGTACAACACACAATGTGCCTCATCGACTCAAAGTCGA
Found at i:126992251 original size:2 final size:2
Alignment explanation
Indices: 126992244--126992295 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
126992234 TTTTATACCT
*
126992244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126992286 TA TA TA TA TA
1 TA TA TA TA TA
126992296 CACTTTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126992778 original size:3 final size:3
Alignment explanation
Indices: 126992770--126992859 Score: 146
Period size: 3 Copynumber: 30.3 Consensus size: 3
126992760 GGCTTCATTT
126992770 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
126992818 TAA TAA TAA TAA T-A TAG TTA TAC TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
126992860 TAAATCTACT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 78 0.98
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:126993668 original size:42 final size:41
Alignment explanation
Indices: 126993599--126993712 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 41
126993589 TAAACAGTGA
* * * *
126993599 GTTACACGGCCTGGACACATGCTCATGTCCTTGCCCGTATG
1 GTTACACGGCCTGGGCACATGCCCATGTCCTTACCCGCATG
* * *
126993640 GCTTACATGGCCTGGGCACAAGCCCATGTCCTTACCCGCGTG
1 G-TTACACGGCCTGGGCACATGCCCATGTCCTTACCCGCATG
* *
126993682 GTTCACACGGACTGAGCACATGCCCATGTCC
1 GTT-ACACGGCCTGGGCACATGCCCATGTCC
126993713 CTGGCCATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.05
42 57 0.95
ACGTcount: A:0.18, C:0.34, G:0.25, T:0.23
Consensus pattern (41 bp):
GTTACACGGCCTGGGCACATGCCCATGTCCTTACCCGCATG
Found at i:126993772 original size:146 final size:147
Alignment explanation
Indices: 126993496--126993815 Score: 401
Period size: 146 Copynumber: 2.2 Consensus size: 147
126993486 ATTCATATGC
* * * * * * * *
126993496 CACATGGCCTGGACACATGCTCATATCCTTACCCGTGTGGCTCACACGGCCTGGGCATATGCCCA
1 CACATGGCCTGGGCACAAGCCCATGTCCTTACCCGCGTGGCTCACACGGACTGAGCACATGCCCA
** * ** * * *
126993561 TGTCGTTTTCCCATGTGGTTCGAAATTATAAACAGTGAGTTACACGGCCTGGACACATGCTCATG
66 TGTCGCCTGCCCATGTGGTTCGAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
126993626 TCCTTGCCCGT-ATGGCT
131 TCCTTGCCCGTGA-GGCT
* *
126993643 TACATGGCCTGGGCACAAGCCCATGTCCTTACCCGCGTGGTTCACACGGACTGAGCACATGCCCA
1 CACATGGCCTGGGCACAAGCCCATGTCCTTACCCGCGTGGCTCACACGGACTGAGCACATGCCCA
* * *
126993708 TGTC-CCTGGCCATGTTGTTCTAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
66 TGTCGCCTGCCCATGTGGTTCGAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
*
126993772 TCCTTGCTCGTGAGGCT
131 TCCTTGCCCGTGAGGCT
* *
126993789 CACACGGCCTGGGCACACGCCCATGTC
1 CACATGGCCTGGGCACAAGCCCATGTC
126993816 TCTAGTCGTG
Statistics
Matches: 147, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
146 87 0.59
147 60 0.41
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (147 bp):
CACATGGCCTGGGCACAAGCCCATGTCCTTACCCGCGTGGCTCACACGGACTGAGCACATGCCCA
TGTCGCCTGCCCATGTGGTTCGAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
TCCTTGCCCGTGAGGCT
Found at i:126995413 original size:32 final size:32
Alignment explanation
Indices: 126995362--126995422 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
126995352 GGAGGTGCGG
* *
126995362 CAATTTTGGTGTAATATGAGAAGAATGCACGA
1 CAATGTTGGCGTAATATGAGAAGAATGCACGA
126995394 CAATGTTGGCGTAATATGAGAAGAATGCA
1 CAATGTTGGCGTAATATGAGAAGAATGCA
126995423 AAATTGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (32 bp):
CAATGTTGGCGTAATATGAGAAGAATGCACGA
Found at i:126999933 original size:15 final size:15
Alignment explanation
Indices: 126999913--126999944 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
126999903 TATTTATTTA
*
126999913 TTTATTTTAATTAAT
1 TTTATTTAAATTAAT
126999928 TTTATTTAAATTAAT
1 TTTATTTAAATTAAT
126999943 TT
1 TT
126999945 CTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTTAAATTAAT
Found at i:126999955 original size:17 final size:17
Alignment explanation
Indices: 126999921--126999963 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
126999911 TATTTATTTT
*
126999921 AATTAA-TT-TTATTTA
1 AATTAATTTCTTAATTA
126999936 AATTAATTTCTTAATTA
1 AATTAATTTCTTAATTA
*
126999953 AATTATTTTCT
1 AATTAATTTCT
126999964 CAACCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 16 0.67
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTAATTTCTTAATTA
Found at i:127011561 original size:37 final size:37
Alignment explanation
Indices: 127011502--127011610 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
127011492 AGCTCAGACG
* *
127011502 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
127011539 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
127011576 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
127011611 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:127011880 original size:48 final size:49
Alignment explanation
Indices: 127011756--127011892 Score: 215
Period size: 50 Copynumber: 2.8 Consensus size: 49
127011746 GCACATCGCC
*
127011756 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* *
127011806 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
127011854 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
127011893 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 36 0.45
49 2 0.03
50 42 0.52
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:127011894 original size:50 final size:50
Alignment explanation
Indices: 127011764--127012055 Score: 226
Period size: 47 Copynumber: 6.1 Consensus size: 50
127011754 CCTACATATT
* * *
127011764 TCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATATATAT-A
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATATCTCATACAT-TCA
* *
127011812 TTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCTCATACATAT-T
1 --TCACATTAG-CCATTCGGCCTTACCACATATATGCATATCTCATACAT-TCA
* *
127011862 TCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCAT--ATTCA
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATATCTCATACATTCA
* * ** * *
127011909 CCACATTGGCCATTCGGCCTTATAACACATATGCAT-GCTC--ACATTCA
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATATCTCATACATTCA
* * *
127011956 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATATCTCATACATTCA
* * * *
127012003 TCACATTAGCCATTCGGCCTTATCTCATATATACACAT-TC--ACATTCA
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATATCTCATACATTCA
127012050 TCACAT
1 TCACAT
127012056 AAAATCCTAA
Statistics
Matches: 210, Mismatches: 21, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
46 1 0.00
47 129 0.61
48 27 0.13
49 6 0.03
50 47 0.22
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (50 bp):
TCACATTAGCCATTCGGCCTTACCACATATATGCATATCTCATACATTCA
Found at i:127011941 original size:47 final size:47
Alignment explanation
Indices: 127011862--127012055 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
127011852 CATACATATT
* * *
127011862 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
127011909 CCACATTGGCCATTCGGCCTTATAACACATATGCATGCTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
127011956 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
127012003 TCACATTAGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
127012050 TCACAT
1 TCACAT
127012056 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:127011986 original size:94 final size:96
Alignment explanation
Indices: 127011815--127012025 Score: 279
Period size: 94 Copynumber: 2.2 Consensus size: 96
127011805 ATATATATTT
* * * *
127011815 CACATTGACCATTCGG-CTT-TACCACATATGCATATCTCATACATATTTCACATTAGCCATTCG
1 CACATTGGCCATTCGGCCTTATAACACATATGCATAGCTCA-ACATATATCACATTAGCCATTCG
* *
127011878 GCTTTACCACATATATGCATGTTCATATTCAC
65 GCCTTACCACATATATGCATGTTCACATTCAC
*
127011910 CACATTGGCCATTCGGCCTTATAACACATATGCAT-GCTC-ACAT-TCATCACATTGGCCATTCG
1 CACATTGGCCATTCGGCCTTATAACACATATGCATAGCTCAACATAT-ATCACATTAGCCATTCG
* *
127011972 GCCTTATCACATATATGCATGTTCACATTCAT
65 GCCTTACCACATATATGCATGTTCACATTCAC
*
127012004 CACATTAGCCATTCGGCCTTAT
1 CACATTGGCCATTCGGCCTTAT
127012026 CTCATATATA
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
93 1 0.01
94 68 0.66
95 15 0.15
96 6 0.06
97 13 0.13
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (96 bp):
CACATTGGCCATTCGGCCTTATAACACATATGCATAGCTCAACATATATCACATTAGCCATTCGG
CCTTACCACATATATGCATGTTCACATTCAC
Found at i:127012056 original size:25 final size:25
Alignment explanation
Indices: 127011977--127012056 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
127011967 ATTCGGCCTT
**
127011977 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
127012002 ATCACAT-TA-GC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
* *
127012024 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
127012049 ATCACATA
1 ATCACATA
127012057 AAATCCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 6 0.15
25 19 0.46
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:127013877 original size:131 final size:131
Alignment explanation
Indices: 127013671--127013948 Score: 547
Period size: 131 Copynumber: 2.1 Consensus size: 131
127013661 CTCAACTTTA
127013671 TAAACACATATTCGGCTAGGAAGAAAGATTGATAATTTAACAGCCTTAGCTTAACATATAATTTG
1 TAAACACATATTCGGCTAGGAAGAAAGATTGATAATTTAACAGCCTTAGCTTAACATATAATTTG
127013736 TTGTGACACATCTTTAAACATTCTTTTATTCCATCAACTCAAAACACATTCATCACTCTCAATAA
66 TTGTGACACATCTTTAAACATTCTTTTATTCCATCAACTCAAAACACATTCATCACTCTCAATAA
127013801 C
131 C
127013802 TAAACACATATTCGGCTAGGAAGAAAGATTGATAATTTAACAGCCTTAGCTTAACATATAATTTG
1 TAAACACATATTCGGCTAGGAAGAAAGATTGATAATTTAACAGCCTTAGCTTAACATATAATTTG
127013867 TTGTGACACATCTTTAAACATTCTTTTATTCCATCAACTCAAAACACATTCATCACTCTCAATAA
66 TTGTGACACATCTTTAAACATTCTTTTATTCCATCAACTCAAAACACATTCATCACTCTCAATAA
127013932 C
131 C
*
127013933 TAAACTCATATTCGGC
1 TAAACACATATTCGGC
127013949 AATAGCCTCC
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 146 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (131 bp):
TAAACACATATTCGGCTAGGAAGAAAGATTGATAATTTAACAGCCTTAGCTTAACATATAATTTG
TTGTGACACATCTTTAAACATTCTTTTATTCCATCAACTCAAAACACATTCATCACTCTCAATAA
C
Found at i:127019422 original size:17 final size:18
Alignment explanation
Indices: 127019381--127019423 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
127019371 TGTATTTACT
127019381 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
127019399 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
127019416 TATTATAT
1 TATTATAT
127019424 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:127021407 original size:22 final size:22
Alignment explanation
Indices: 127021382--127021431 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
127021372 GATGACACAG
127021382 GCGTGTCACATCAGCCACACGA
1 GCGTGTCACATCAGCCACACGA
*
127021404 GCGTGTCACATCAGCCACACGG
1 GCGTGTCACATCAGCCACACGA
127021426 GCGTGT
1 GCGTGT
127021432 GGTACTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (22 bp):
GCGTGTCACATCAGCCACACGA
Found at i:127025987 original size:42 final size:42
Alignment explanation
Indices: 127025941--127026101 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 42
127025931 TCATTTTCTC
**
127025941 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
* * *
127025983 GATGCCA-AACCCTAACTATGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCC-AACTATGGTCTTACACATCTTCACATAAT
* * *
127026024 CGATGCCATAGTCCAGCTATGGTCTTACACGGATCACATATCACATATT
1 -GATGCCATAGCCCAACTATGGTCTTACAC--AT--C-T-TCACATAAT
*
127026073 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
127026102 GAATCACATG
Statistics
Matches: 97, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 4 0.04
42 53 0.55
43 3 0.03
44 2 0.02
47 1 0.01
48 33 0.34
49 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
Found at i:127026081 original size:48 final size:48
Alignment explanation
Indices: 127026009--127026144 Score: 161
Period size: 48 Copynumber: 2.9 Consensus size: 48
127025999 TATGGTCTTA
* * *
127026009 CACATATTCATATATCGATGCCATAGTCCAGCTATGGTCTTACACGGAT
1 CACATA-TCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
*
127026058 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
* * * *
127026106 CACATGTCTC--ATTGATGCCATA-TCCCAGATATAGTCTTA
1 CACATATCACATATTGATGCCATAGT-CCAGCTATGGTCTTA
127026145 TACAGTAGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.32
48 46 0.60
49 6 0.08
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
Found at i:127035964 original size:30 final size:30
Alignment explanation
Indices: 127035928--127035987 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
127035918 CTAAATTACA
*
127035928 GAAGAAGAACCGATTAAGATACTGGCATAT
1 GAAGAAGAACCGATTAAGATACTAGCATAT
* *
127035958 GAAGAAGAACCGGTTACGATACTAGCATAT
1 GAAGAAGAACCGATTAAGATACTAGCATAT
127035988 CGTGATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (30 bp):
GAAGAAGAACCGATTAAGATACTAGCATAT
Found at i:127036592 original size:17 final size:18
Alignment explanation
Indices: 127036551--127036593 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
127036541 TGTATTTACT
127036551 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
127036569 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
127036586 TATTATAT
1 TATTATAT
127036594 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:127037577 original size:6 final size:6
Alignment explanation
Indices: 127037566--127037603 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
127037556 TCTATATCTG
* *
127037566 ACTGTT ACTGTT ACTGCT ACTGTT ACTGTT ATTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
127037604 CCTTACGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:127041600 original size:12 final size:11
Alignment explanation
Indices: 127041578--127041602 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
127041568 AACACTGTGG
127041578 TAAAATTTTTT
1 TAAAATTTTTT
127041589 TAAAATTTTTT
1 TAAAATTTTTT
127041600 TAA
1 TAA
127041603 CAAATACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAAAATTTTTT
Found at i:127043258 original size:47 final size:50
Alignment explanation
Indices: 127043200--127043310 Score: 147
Period size: 47 Copynumber: 2.3 Consensus size: 50
127043190 TTGGCTATGC
* * *
127043200 CGAAGTAAACAGTAACAGTACGATACTC-A-GTACTTCATCGAATTAAA-T
1 CGAAGT-AACAGTAACAGTACGACACACAAGGTACCTCATCGAATTAAAGT
* *
127043248 TGAAGTAACAGTAACAGTACGACACACAAGGTACCTCATCGACTTAAAGT
1 CGAAGTAACAGTAACAGTACGACACACAAGGTACCTCATCGAATTAAAGT
127043298 CGAAGTAACAGTA
1 CGAAGTAACAGTA
127043311 CGACACTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
47 19 0.35
48 6 0.11
49 16 0.30
50 13 0.24
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (50 bp):
CGAAGTAACAGTAACAGTACGACACACAAGGTACCTCATCGAATTAAAGT
Found at i:127043329 original size:44 final size:44
Alignment explanation
Indices: 127043257--127043348 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
127043247 TTGAAGTAAC
*
127043257 AGTAACAGTACGACACACAAGGTACCTCATCGACTTAAAGTCGA
1 AGTAACAGTACGACACACAAGGTACCTCATCGACTCAAAGTCGA
** * *
127043301 AGTAACAGTACGACACTTATA-GTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACA-AGGTACCTCATCGACTCAAAGTCGA
127043345 AGTA
1 AGTA
127043349 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAGGTACCTCATCGACTCAAAGTCGA
Found at i:127044010 original size:11 final size:12
Alignment explanation
Indices: 127043988--127044017 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
127043978 TTAATATGTA
127043988 AATTTCTTATTC
1 AATTTCTTATTC
127044000 AATTT-TTATTC
1 AATTTCTTATTC
127044011 AATTTCT
1 AATTTCT
127044018 ACTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTCTTATTC
Found at i:127044271 original size:22 final size:22
Alignment explanation
Indices: 127044245--127044288 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
127044235 ATCAATTAAA
127044245 CCCTTAATTCATCATTTTTTTC
1 CCCTTAATTCATCATTTTTTTC
127044267 CCCTTAATTCATCATTTTTTTC
1 CCCTTAATTCATCATTTTTTTC
127044289 AACATGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (22 bp):
CCCTTAATTCATCATTTTTTTC
Found at i:127044543 original size:28 final size:30
Alignment explanation
Indices: 127044484--127044543 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
127044474 TTCTCCCCTG
* *
127044484 TTTTTCGTTTCTATTCTGTTTCTTTCCGTC
1 TTTTTCGTTTCTATTCTGTTTCTTTACATC
* *
127044514 TTTTTTGTTTCT-TTCT-TTTCTTTATATC
1 TTTTTCGTTTCTATTCTGTTTCTTTACATC
127044542 TT
1 TT
127044544 ATATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.42
29 4 0.15
30 11 0.42
ACGTcount: A:0.05, C:0.18, G:0.07, T:0.70
Consensus pattern (30 bp):
TTTTTCGTTTCTATTCTGTTTCTTTACATC
Found at i:127044550 original size:2 final size:2
Alignment explanation
Indices: 127044543--127044582 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
127044533 CTTTATATCT
127044543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127044583 GTTAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127044593 original size:3 final size:3
Alignment explanation
Indices: 127044585--127044626 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
127044575 TATATATAGT
* *
127044585 TAA TAA TAA TAA TAA TAA TACA TTA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
127044627 GATATCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:127044889 original size:12 final size:12
Alignment explanation
Indices: 127044872--127044910 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
127044862 TTTATTTCAT
127044872 TATAATATAATA
1 TATAATATAATA
127044884 TATAATATAATTAA
1 TATAATATAA-T-A
*
127044898 TATAATTTAATA
1 TATAATATAATA
127044910 T
1 T
127044911 TAACCAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 12 0.50
13 2 0.08
14 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATAATATAATA
Found at i:127046149 original size:21 final size:21
Alignment explanation
Indices: 127046123--127046168 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
127046113 TACATGCCCA
* *
127046123 TGTGAAGGCCATATATACCCG
1 TGTGAAGGCCACATACACCCG
*
127046144 TGTGAAGGCCACATACGCCCG
1 TGTGAAGGCCACATACACCCG
127046165 TGTG
1 TGTG
127046169 GAGGGGACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (21 bp):
TGTGAAGGCCACATACACCCG
Found at i:127046792 original size:15 final size:16
Alignment explanation
Indices: 127046772--127046801 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
127046762 CTTTTATAAA
127046772 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
127046787 AAATAAATATAAAAA
1 AAATAAATATAAAAA
127046802 ACACTCACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:127065235 original size:2 final size:2
Alignment explanation
Indices: 127065228--127065261 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
127065218 TTAATGTTAT
127065228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127065262 ACAAAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127066245 original size:16 final size:16
Alignment explanation
Indices: 127066224--127066257 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
127066214 ATATATAGTT
127066224 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
127066240 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
127066256 AA
1 AA
127066258 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:127066503 original size:59 final size:59
Alignment explanation
Indices: 127066430--127066568 Score: 173
Period size: 53 Copynumber: 2.5 Consensus size: 59
127066420 CGGATATTGT
* * * *
127066430 TACTGTTACCGTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
1 TACTGTTACTGTTACTGTTACTGTTCCAGATTTATTCCGATGAGGTACTCTGTGTACCA
* *
127066489 TACTGTTACTGTTAC-----C-GTTCCAGATTTATTCTGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTACTGTTACTGTTCCAGATTTATTCCGATGAGGTACTCTGTGTACCA
*
127066542 TACTGCTACTGTTACTGTTACTGTTCC
1 TACTGTTACTGTTACTGTTACTGTTCC
127066569 GGCTTCGGCT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
53 46 0.69
54 1 0.01
58 1 0.01
59 19 0.28
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (59 bp):
TACTGTTACTGTTACTGTTACTGTTCCAGATTTATTCCGATGAGGTACTCTGTGTACCA
Found at i:127066838 original size:18 final size:18
Alignment explanation
Indices: 127066761--127066842 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
127066751 CGATCAATTG
*
127066761 ATTGATACTGAA-AAACTA
1 ATTGTTACTGAATAAA-TA
* * * *
127066779 ATTATTATTGAATAATTG
1 ATTGTTACTGAATAAATA
* * *
127066797 ATTGTTACCGAATAACTG
1 ATTGTTACTGAATAAATA
*
127066815 ACTGTTACTGAATAAATA
1 ATTGTTACTGAATAAATA
127066833 ATTGTT-CTGA
1 ATTGTTACTGA
127066843 TTGACTGATT
Statistics
Matches: 49, Mismatches: 14, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
17 4 0.08
18 43 0.88
19 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (18 bp):
ATTGTTACTGAATAAATA
Found at i:127069126 original size:26 final size:26
Alignment explanation
Indices: 127069097--127069204 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
127069087 TGGTACAAAT
127069097 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
127069123 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127069149 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127069175 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127069201 TGAT
1 TGAT
127069205 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:127076100 original size:25 final size:25
Alignment explanation
Indices: 127076030--127076100 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 25
127076020 ATATTTTCAC
* *
127076030 ATTAATGTTATTTACAATTTTT-TA
1 ATTAAAGTTATTTATAATTTTTATA
* * * **
127076054 ATTAAA-CTCTTCATAACATTTATA
1 ATTAAAGTTATTTATAATTTTTATA
127076078 ATTAAAGTTATTTATAATTTTTA
1 ATTAAAGTTATTTATAATTTTTA
127076101 ATATTTATAA
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
23 9 0.27
24 13 0.39
25 11 0.33
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (25 bp):
ATTAAAGTTATTTATAATTTTTATA
Found at i:127078296 original size:18 final size:19
Alignment explanation
Indices: 127078270--127078307 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
127078260 TACTTTGCCC
* *
127078270 AAACCAAAAA-CATTGTCA
1 AAACAAAAAATCAATGTCA
127078288 AAACAAAAAATCAATGTCA
1 AAACAAAAAATCAATGTCA
127078307 A
1 A
127078308 TAACTACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (19 bp):
AAACAAAAAATCAATGTCA
Found at i:127078409 original size:14 final size:15
Alignment explanation
Indices: 127078390--127078422 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
127078380 ATCAGTAATC
127078390 GAATAAAAATACTT-
1 GAATAAAAATACTTA
127078404 GAATAAAAATACTTA
1 GAATAAAAATACTTA
127078419 GAAT
1 GAAT
127078423 CTTGACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (15 bp):
GAATAAAAATACTTA
Found at i:127079285 original size:16 final size:16
Alignment explanation
Indices: 127079264--127079295 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
127079254 CGAAACATGA
*
127079264 AACACATTATGGATGT
1 AACACATTATAGATGT
127079280 AACACATTATAGATGT
1 AACACATTATAGATGT
127079296 GACTCTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
AACACATTATAGATGT
Found at i:127084620 original size:16 final size:16
Alignment explanation
Indices: 127084599--127084630 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
127084589 TCATCACAAC
127084599 ATAGATACATTTATAT
1 ATAGATACATTTATAT
*
127084615 ATAGATTCATTTATAT
1 ATAGATACATTTATAT
127084631 TAAAACAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAGATACATTTATAT
Found at i:127088658 original size:30 final size:27
Alignment explanation
Indices: 127088595--127088666 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 27
127088585 AATCTTACTT
127088595 TTTTGTCACGTTTA-TTTTTTTTAATG
1 TTTTGTCACGTTTATTTTTTTTTAATG
***
127088621 AAATGTCACGTTTATTTTTTTAACTTAATG
1 TTTTGTCACGTTTATTTTTTT---TTAATG
*
127088651 TTTTGTCACTTTTATT
1 TTTTGTCACGTTTATT
127088667 CATAATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 11 0.31
27 6 0.17
30 18 0.51
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.60
Consensus pattern (27 bp):
TTTTGTCACGTTTATTTTTTTTTAATG
Found at i:127106299 original size:19 final size:18
Alignment explanation
Indices: 127106275--127106381 Score: 76
Period size: 19 Copynumber: 5.4 Consensus size: 18
127106265 CCACTCAAAC
127106275 AAAATAAAGTAATAAAAAT
1 AAAATAAA-TAATAAAAAT
127106294 AAAATAAAATAA-AATAAAGT
1 AAAAT-AAATAATAA-AAA-T
127106314 AATGAATAAATAAATAATAAAT
1 AA--AATAAAT-AATAA-AAAT
127106336 AAAATAATAAATAATAAATAAT
1 --AA-AATAAATAATAAA-AAT
*
127106358 AAAATAAA-AATAAAGA-
1 AAAATAAATAATAAAAAT
127106374 AAAATAAA
1 AAAATAAA
127106382 AATTGGGTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 23
0.75 0.02 0.23
Matches are distributed among these distances:
16 8 0.11
17 1 0.01
18 8 0.11
19 17 0.22
20 8 0.11
21 5 0.07
22 14 0.18
23 13 0.17
24 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAAATAATAAAAAT
Found at i:127106309 original size:15 final size:15
Alignment explanation
Indices: 127106275--127106382 Score: 64
Period size: 15 Copynumber: 6.9 Consensus size: 15
127106265 CCACTCAAAC
* *
127106275 AAAATAAAGTAATA-
1 AAAATAAAATAAAAT
127106289 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
*
127106304 AAAATAAAGTAATGAAT
1 AAAATAAAATAA--AAT
127106321 -AAAT-AAATAATAAAT
1 AAAATAAAAT-A-AAAT
127106336 AAAATAATAAATAATAA-
1 AAAAT-A-AAATAA-AAT
*
127106353 ATAATAAAATAAAAAT
1 AAAATAAAAT-AAAAT
127106369 AAAGA-AAAATAAAA
1 AAA-ATAAAATAAAA
127106383 ATTGGGTTGC
Statistics
Matches: 75, Mismatches: 6, Indels: 25
0.71 0.06 0.24
Matches are distributed among these distances:
14 12 0.16
15 27 0.36
16 19 0.25
17 10 0.13
18 3 0.04
19 4 0.05
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:127106327 original size:4 final size:4
Alignment explanation
Indices: 127106276--127106365 Score: 55
Period size: 4 Copynumber: 21.8 Consensus size: 4
127106266 CACTCAAACA
* *
127106276 AAAT AAAGT AATAA AAAT AAAAT AAAAT AAAAT AAAGT -AAT GAAT AAAT
1 AAAT AAA-T AA-AT AAAT -AAAT -AAAT -AAAT AAA-T AAAT AAAT AAAT
127106325 AAAT -AAT AAAT AAA- ATAAT AAAT -AAT AAAT -AAT AAAAT AAA
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT -AAAT AAA
127106366 AATAAAGAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
3 11 0.15
4 36 0.50
5 24 0.33
6 1 0.01
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:127106336 original size:37 final size:35
Alignment explanation
Indices: 127106277--127106381 Score: 112
Period size: 37 Copynumber: 3.0 Consensus size: 35
127106267 ACTCAAACAA
127106277 AATAAAGTAATAAA-AATAAAATAAAATAAAATAAAGT
1 AATAAA-TAATAAATAAT-AAATAAAATAAAATAAA-T
*
127106314 AATGAATAAATAAATAATAAATAAAAT--AATAAAT
1 AATAAAT-AATAAATAATAAATAAAATAAAATAAAT
127106348 AATAAATAATAAAATAA-AAATAAAGA-AAAATAAA
1 AATAAATAAT-AAATAATAAATAAA-ATAAAATAAA
127106382 AATTGGGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
33 10 0.17
34 14 0.23
35 12 0.20
36 1 0.02
37 20 0.33
38 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (35 bp):
AATAAATAATAAATAATAAATAAAATAAAATAAAT
Found at i:127119018 original size:21 final size:21
Alignment explanation
Indices: 127118994--127119058 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
127118984 AAATCTAACT
127118994 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
127119015 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
127119033 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
127119054 GAAGC
1 GAAGC
127119059 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:127119031 original size:39 final size:39
Alignment explanation
Indices: 127118976--127119076 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
127118966 ATCGTGATCT
**
127118976 GAAGCCCGAAATCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
127119015 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
127119054 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
127119077 TCATCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:127127066 original size:16 final size:16
Alignment explanation
Indices: 127127047--127127095 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
127127037 AAAGTGATAA
*
127127047 AAAAAGTACAAAAAAT
1 AAAAAGTAAAAAAAAT
127127063 AAAATACG-AAAAAAAAT
1 AAAA-A-GTAAAAAAAAT
*
127127080 AAAAAATAAAAAAAAT
1 AAAAAGTAAAAAAAAT
127127096 TCTGTGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 14 0.50
17 13 0.46
18 1 0.04
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (16 bp):
AAAAAGTAAAAAAAAT
Found at i:127127091 original size:17 final size:17
Alignment explanation
Indices: 127127056--127127094 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
127127046 AAAAAAGTAC
* *
127127056 AAAAAATAAAATACGAA
1 AAAAAATAAAAAACAAA
*
127127073 AAAAAATAAAAAATAAA
1 AAAAAATAAAAAACAAA
127127090 AAAAA
1 AAAAA
127127095 TTCTGTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAAAATAAAAAACAAA
Found at i:127133539 original size:17 final size:16
Alignment explanation
Indices: 127133517--127133568 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
127133507 AAAAAAAGTG
127133517 ATAAAAAAGTACAAAAA
1 ATAAAAAAGTA-AAAAA
* *
127133534 ATAAAATACGAAAAAAAA
1 ATAAAA-AAG-TAAAAAA
127133552 ATAAAAAA-TAAAAAA
1 ATAAAAAAGTAAAAAA
127133567 AT
1 AT
127133569 TCTGTGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 8 0.28
17 7 0.24
18 13 0.45
19 1 0.03
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (16 bp):
ATAAAAAAGTAAAAAA
Found at i:127133552 original size:13 final size:13
Alignment explanation
Indices: 127133519--127133565 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
127133509 AAAAAGTGAT
*
127133519 AAAAAAGTACAAA
1 AAAAAAATACAAA
*
127133532 AAATAAAATACGAA
1 AAA-AAAATACAAA
127133546 AAAAAAATA-AAA
1 AAAAAAATACAAA
127133558 AATAAAAA
1 AA-AAAAA
127133566 AATTCTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (13 bp):
AAAAAAATACAAA
Found at i:127141840 original size:58 final size:58
Alignment explanation
Indices: 127141750--127141867 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
127141740 TGCTTGAGCT
127141750 TGCAAAGCAGGAGGCAGTAAAGACTTGCTCCTTTTGAACTTAGACATCCTTAGCAGCC
1 TGCAAAGCAGGAGGCAGTAAAGACTTGCTCCTTTTGAACTTAGACATCCTTAGCAGCC
*
127141808 TGCAAAGCAGGAGGCAGTAAAGACTTGCTCCTTTTGAACTTAGACATCCTTAGTAGCC
1 TGCAAAGCAGGAGGCAGTAAAGACTTGCTCCTTTTGAACTTAGACATCCTTAGCAGCC
127141866 TG
1 TG
127141868 AGCTTGATTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (58 bp):
TGCAAAGCAGGAGGCAGTAAAGACTTGCTCCTTTTGAACTTAGACATCCTTAGCAGCC
Found at i:127144284 original size:2 final size:2
Alignment explanation
Indices: 127144277--127144317 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
127144267 TAACTCTTAG
127144277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127144318 AAACGAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:127171778 original size:46 final size:46
Alignment explanation
Indices: 127171726--127171953 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
127171716 AGTGTGCTCT
127171726 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
127171772 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
127171818 CTAATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
127171864 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
127171910 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
127171954 TCATGTCAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:127176386 original size:27 final size:27
Alignment explanation
Indices: 127176353--127176415 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
127176343 ATATTTTAAA
* *
127176353 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
127176380 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
127176407 TATT-TTTAT
1 TATTATTTAT
127176416 TCATTTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:127176416 original size:24 final size:26
Alignment explanation
Indices: 127176353--127176437 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
127176343 ATATTTTAAA
* *
127176353 TATTATTTATATT-ATCCTTATGACTAT
1 TATTA-TTATATTCAT-TTTATCACTAT
127176380 TATTATTAATATTC-TTATTATCACTAT
1 TATTATT-ATATTCATT-TTATCACTAT
*
127176407 TATT-TT-TATTCATTTTATCAATA-
1 TATTATTATATTCATTTTATCACTAT
127176430 TATTATTA
1 TATTATTA
127176438 CTACAGTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 2 0.04
26 4 0.08
27 24 0.49
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTATATTCATTTTATCACTAT
Found at i:127176424 original size:27 final size:27
Alignment explanation
Indices: 127176370--127176437 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
127176360 TATATTATCC
*
127176370 TTATGACTATTATTATTAATATTCTTA
1 TTATCACTATTATTATTAATATTCTTA
127176397 TTATCACTATTATT-TT--TATTCATT-
1 TTATCACTATTATTATTAATATTC-TTA
*
127176421 TTATCAATA-TATTATTA
1 TTATCACTATTATTATTA
127176438 CTACAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 2 0.06
26 2 0.06
27 13 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATCACTATTATTATTAATATTCTTA
Done.