Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1039
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: 112388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:5562 original size:21 final size:20
Alignment explanation
Indices: 5533--5575 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5523 GGCTAGTGTG
**
5533 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCATGACCT
*
5554 GGGAGTGCCGGTCATGACCT
1 GGGACTGCCGGTCATGACCT
5574 GG
1 GG
5576 TGATGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCATGACCT
Found at i:6032 original size:13 final size:13
Alignment explanation
Indices: 6014--6052 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
6004 ATAATCACCC
6014 TGTATCGATACAA
1 TGTATCGATACAA
6027 TGTATCGATACAA
1 TGTATCGATACAA
6040 TGTATCGATACAA
1 TGTATCGATACAA
6053 AGAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8142 original size:15 final size:15
Alignment explanation
Indices: 8122--8152 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8112 ATTTCGTTTG
*
8122 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
8137 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
8152 G
1 G
8153 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:9984 original size:21 final size:21
Alignment explanation
Indices: 9955--9999 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9945 AAGTTTTCAT
*
9955 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
9975 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
9997 TTT
1 TTT
10000 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:12237 original size:13 final size:13
Alignment explanation
Indices: 12219--12244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12209 CAATTTTTTG
12219 TGTATCGATACAT
1 TGTATCGATACAT
12232 TGTATCGATACAT
1 TGTATCGATACAT
12245 ACTTGCTGTA
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:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19013 original size:12 final size:12
Alignment explanation
Indices: 18996--19028 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
18986 AACCTTCTCC
18996 GCAAGAGGATAA
1 GCAAGAGGATAA
19008 GCAAGAGGATAA
1 GCAAGAGGATAA
19020 GCAAGAGGA
1 GCAAGAGGA
19029 ACCACAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.36, T:0.06
Consensus pattern (12 bp):
GCAAGAGGATAA
Found at i:22020 original size:166 final size:165
Alignment explanation
Indices: 21625--22071 Score: 514
Period size: 165 Copynumber: 2.7 Consensus size: 165
21615 CTTCTTCTTC
* * * * *
21625 GTAAATTTCTTCGGGAGGATTTTTCTTGGTTTTTAATTTTTCAAATTCATCAAATATGATTATTT
1 GTAAATTTTTTTGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
* * ** *
21690 ATCTCACATTAAATCAGTTTTCAAAAATTCATTCA-CTTTCAGAATTTTTTTAATTTTTTTTTAA
66 ATCTCACATTAAATCATTTTTCAAAAATTCATTCATC-TTCATAA-AATTTTGATTTTTTTTTAA
21754 AACTCCCTTTCTTTCGAAATACGAAATTTTCTACTCA
129 AACTCCCTTTCTTTCGAAATACGAAATTTTCTACTCA
* * * * * *
21791 GTAAA-TGTTTTAGAGAGATTTTTCTCT-ATTTTTAATTTTTAAAATTTATCAAATATTATTATT
1 GTAAATTTTTTTGGGGGGATTTTTCT-TGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
* *
21854 TAACTCACATTAAATCATTTTTCAAAAATTTATTCATCTTCATAAAATTTTGATTTTTTTCTTGA
65 TATCTCACATTAAATCATTTTTCAAAAATTCATTCATCTTCATAAAATTTTGATTTTTTT-TT-A
** * *
21919 AATTTCCC-TT-TTTCTGAAATAC-AGATTTTTCTACTCT
128 AAACTCCCTTTCTTTC-GAAATACGA-AATTTTCTACTCA
*
21956 GTAAATTTTTTTGGGGGGATTTTTCTTGGTTTTTGATTTTTAAAATTCATCAAATATTATTATTT
1 GTAAATTTTTTTGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
* * * * *
22021 ATTTTATATTAATTCATTTTTCAATAATTCATTCAT-TTCCAT-AAATTTTGA
66 ATCTCACATTAAATCATTTTTCAAAAATTCATTCATCTT-CATAAAATTTTGA
22072 ATTTGAAATC
Statistics
Matches: 236, Mismatches: 36, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
164 17 0.07
165 123 0.52
166 96 0.41
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (165 bp):
GTAAATTTTTTTGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
ATCTCACATTAAATCATTTTTCAAAAATTCATTCATCTTCATAAAATTTTGATTTTTTTTTAAAA
CTCCCTTTCTTTCGAAATACGAAATTTTCTACTCA
Found at i:23750 original size:169 final size:171
Alignment explanation
Indices: 23419--23773 Score: 435
Period size: 169 Copynumber: 2.1 Consensus size: 171
23409 AAGTGGTTAA
* * * * *
23419 GGACTAAAATGCAAATATCCAATGTTTAGGGACTTGTATGCAAAACCGATTTTTCTCTAGAAATG
1 GGACCAAAATGCAAATATCCAAAGTATAAGGACTTGTATGCAAAACCGATTTTTCTCTAGAAACG
* * * * *
23484 TTGTACATGGCCGAACCTAACATATTTCTTTGCTGTATTTTTGCTGCTGTTATTAAGCTGATTTC
66 TTGCACATGGCCAAACCTAACATATTTCTTGGCTGTAATTTTGCTACTGTTATTAAGCTGATTTC
* * * *
23549 ATGCTTTAAATGATGTGTTCTCATGTTATTTTGATGTATAG
131 ATGCTTTAAATGATGAGTTCCCATGCTATTTTGAAGTATAG
** * *
23590 GGACCAAAATGCAAATATCCAAAGTATAAGGACTTGTATG-AAAATTGATTTTTCTTTAGACACG
1 GGACCAAAATGCAAATATCCAAAGTATAAGGACTTGTATGCAAAACCGATTTTTCTCTAGAAACG
*** ** * * * *
23654 TTGCGTTTGGCCAAATTTAAGATGTTTCTTGGCTG-AATTTTGCTACTGTTGTTGAGCTGATTTC
66 TTGCACATGGCCAAACCTAACATATTTCTTGGCTGTAATTTTGCTACTGTTATTAAGCTGATTTC
*
23718 ATGCTTTAAGTGATGAGTTCCCATGCTATTTTGAAGTATAG
131 ATGCTTTAAATGATGAGTTCCCATGCTATTTTGAAGTATAG
*
23759 GGGCCAAAATGCAAA
1 GGACCAAAATGCAAA
23774 AACCAAAAAG
Statistics
Matches: 155, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
169 75 0.48
170 44 0.28
171 36 0.23
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (171 bp):
GGACCAAAATGCAAATATCCAAAGTATAAGGACTTGTATGCAAAACCGATTTTTCTCTAGAAACG
TTGCACATGGCCAAACCTAACATATTTCTTGGCTGTAATTTTGCTACTGTTATTAAGCTGATTTC
ATGCTTTAAATGATGAGTTCCCATGCTATTTTGAAGTATAG
Found at i:24291 original size:157 final size:157
Alignment explanation
Indices: 23994--24482 Score: 620
Period size: 157 Copynumber: 3.0 Consensus size: 157
23984 GTGATAAATT
* * *
23994 AAATTTTAACTATTTTTTCTAATCTTTTATATTCCTATAGGCATTCGTAGGGGTATAAAAGATTT
1 AAATTTT-A-TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTC
* *
24059 CAAAAACGTTTTCGTATCCTTTCGGGCTTCCATTAGGGTACGAAATAGTATTTTCAAAAATAAAT
64 CAAAAACGTTTTCGTATCCTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAAATAAAT
* *
24124 AAAATTAAATTTAATTAATACTTTTGGATT
129 AAAATTAAATTAAATTAATA-TTTTGGATA
* *
24154 AAATTTTA-ATTTTTTCTAATCTTTTATATTCCTATGGGCATCCATAGGGATATAAAAGATTCCA
1 AAATTTTATATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTCCA
* * * *
24218 AAAACGTTTTTGTGTCCTTTTGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAAATAAATTA
66 AAAACGTTTTCGTATCCTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAAATAAATAA
** * * *
24283 AATTAAATTAAATTGGTATTATCGAAAA
131 AATTAAATTAAATTAATATT-TTGGATA
24311 AAATTCTAATATCTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGA
1 AAATT-T--TA--TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGA
* * * * * * *
24376 TTTCAAAAAAAAGTCTTTCATATTCTTTCGAGCTTTCATTAGGGTATGAAATGATATTTTCAAAA
61 -TTC-CAAAAACGT-TTTCGTATCCTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAA
* *
24441 ATAAATAAAATTAAATTGAATTAATATTTTGGAGA
123 ATAAATAAAATTAAATTAAATTAATATTTTGGATA
24476 AAATTTT
1 AAATTTT
24483 GATCTTTTAT
Statistics
Matches: 282, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
156 2 0.01
157 133 0.47
158 1 0.00
159 1 0.00
160 9 0.03
162 1 0.00
163 49 0.17
164 4 0.01
165 16 0.06
166 66 0.23
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (157 bp):
AAATTTTATATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTCCA
AAAACGTTTTCGTATCCTTTCGGGCTTCCATTAGGGTATGAAATGGTATTTTCAAAAATAAATAA
AATTAAATTAAATTAATATTTTGGATA
Found at i:25914 original size:23 final size:23
Alignment explanation
Indices: 25888--25934 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
25878 TTCATCATTA
* *
25888 TCATAACTAAATCAATGGCTATT
1 TCATAACCAAATCAAGGGCTATT
25911 TCATAACCAAATCAAGGGCTATT
1 TCATAACCAAATCAAGGGCTATT
25934 T
1 T
25935 TAAGTCGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (23 bp):
TCATAACCAAATCAAGGGCTATT
Found at i:37355 original size:19 final size:19
Alignment explanation
Indices: 37290--37355 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
37280 CCAATGTCGC
*
37290 TGGCCTTGAATCAGCACAT
1 TGGCCTTGAATCAGCATAT
* **
37309 TGGCACCTTTAAGTCCAATATCAT
1 TGG--CCTTGAA-T-CAGCAT-AT
37333 TGGCCTTGAATCAGCATAT
1 TGGCCTTGAATCAGCATAT
37352 TGGC
1 TGGC
37356 GCCTTTGTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 9 0.26
20 4 0.11
21 7 0.20
22 7 0.20
23 3 0.09
24 5 0.14
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (19 bp):
TGGCCTTGAATCAGCATAT
Found at i:37643 original size:47 final size:47
Alignment explanation
Indices: 37124--37648 Score: 410
Period size: 47 Copynumber: 10.8 Consensus size: 47
37114 CACCTTTGTT
* * * * * *
37124 TTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGCCACCTTTTTC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCTTC
* * * * * *
37173 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATT-G-G-C-AT-TCTTC
** *
37225 TTTAAAACCCAATGTCGTTGGCCTTGAATCAACACGTTGGCATTCTTC
1 TTT-AAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
* *
37273 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--C--C
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
* * * * * *
37316 TTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATT-G-G-C-AT-TCTTC
** *
37368 TTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTATTC
1 TTT-AAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
* * * *
37416 TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCTTC
* * * * * *
37465 TTTAAGTCTAATATCGCTGGCCTTGAATCAACATATTGACGCCTTTGTCATC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTG--G-C-AT-TCTTC
**
37517 TTTAAAACCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
1 TTT-AAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
* *
37565 TTTAAGTCCAATGTCGTTGGCCTTGACTCAGCACATTGGCATTCTTC
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
* * * * * *
37612 TTCAAATCTAATGTCGTTGACCGTGAATCAGCACATT
1 TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATT
37649 AACATCCTTT
Statistics
Matches: 385, Mismatches: 67, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
43 34 0.09
44 1 0.00
45 2 0.01
46 1 0.00
47 137 0.36
48 20 0.05
49 73 0.19
50 5 0.01
51 6 0.02
52 22 0.06
53 84 0.22
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (47 bp):
TTTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC
Found at i:37663 original size:100 final size:96
Alignment explanation
Indices: 37131--37648 Score: 458
Period size: 100 Copynumber: 5.3 Consensus size: 96
37121 GTTTTTAAGA
* * * * * *
37131 CCAATGTCGCTGGCCTTGACTCAGCACATTGCCACCTTTTTCTTTAAGTCCAATATCGCTGGCCT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTCGTTGGCCT
* * * * *
37196 TGAATCAGCATATTGGTGCCTTTGTCATCTTTAAAAC
66 TGAATCAACACATT-G-G-C-AT-TCTTCTTT-AAAT
* * *
37233 CCAATGTCGTTGGCCTTGAATCAACACGTTGGCA--TTCTTCTTTAAGTCCAATGTCGCTGGCCT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTCGTTGGCCT
* *
37296 TGAATCAGCACATTGGCA--C--CTTTAAGT
66 TGAATCAACACATTGGCATTCTTCTTTAAAT
* * * * * **
37323 CCAATATCATTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCCAATGTCGTTG
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACC--T-TCTTCTTT-AAGTCCAATGTCGTTG
* *
37388 GCCTTGAATCAACACATTGGCATTATTCTTTAAGT
62 GCCTTGAATCAACACATTGGCATTCTTCTTTAAAT
* * * * * *
37423 CCAATGTCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTCGTTGGCCT
* * * *
37488 TGAATCAACATATTGACGCCTTTGTCATCTTTAAAAC
66 TGAATCAACACATTG--G-C-AT-TCTTCTTT-AAAT
*
37525 CCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCTTCTTTAAGTCCAATGTCGTTGGCCT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTCGTTGGCCT
* * *
37588 TGACTCAGCACATTGGCATTCTTCTTCAAAT
66 TGAATCAACACATTGGCATTCTTCTTTAAAT
* * *
37619 CTAATGTCGTTGACCGTGAATCAGCACATT
1 CCAATGTCGTTGGCCTTGAATCAGCACATT
37649 AACATCCTTT
Statistics
Matches: 342, Mismatches: 58, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
90 30 0.09
91 4 0.01
93 1 0.00
94 30 0.09
95 13 0.04
96 64 0.19
97 10 0.03
98 4 0.01
99 2 0.01
100 116 0.34
101 6 0.02
102 62 0.18
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (96 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCTTCTTTAAGTCCAATGTCGTTGGCCT
TGAATCAACACATTGGCATTCTTCTTTAAAT
Found at i:37705 original size:149 final size:148
Alignment explanation
Indices: 37124--37698 Score: 804
Period size: 149 Copynumber: 3.9 Consensus size: 148
37114 CACCTTTGTT
* * *
37124 TTTAAGACCAATGTCGCTGGCCTTGACTCAGCACATTGCCACCTTTTTCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCA-CTTCTTCTTTAAGTCCAATATCG
**
37189 CTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAAT
65 CTGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAAT
*
37254 CAACACGTTGGCATTCTTC
130 CAACACATTGGCATTCTTC
* **
37273 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATCAT
1 TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACTTCTTCTTTAAGTCCAATATCGC
*
37333 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATC
66 TGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATC
*
37398 AACACATTGGCATTATTC
131 AACACATTGGCATTCTTC
* *
37416 TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCA-CTTCTTCTTTAAGTCCAATATCG
*
37481 CTGGCCTTGAATCAACATATTGACGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAAT
65 CTGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAAT
37546 CAACACATTGGCATTCTTC
130 CAACACATTGGCATTCTTC
* * * * * *
37565 TTTAAGTCCAATGTCGTTGGCCTTGACTCAGCACATTGGCA-TTCTTCTTCAAATCTAATGTCGT
1 TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACTTCTTCTTTAAGTCCAATATCGC
* * * * * * * *
37629 TGACCGTGAATCAGCACATTAACATCCTTTTTCTTATCTTT-AAACCCAATATCGTTGGCCGTGA
66 TGGCCTTGAATCAGCATATTGAC-GCCTTTGTC--ATCTTTAAAACCCAATGTCGTTGGCCTTGA
37693 ATCAAC
128 ATCAAC
37699 GTATTGGTCC
Statistics
Matches: 386, Mismatches: 31, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
143 136 0.35
147 37 0.10
148 7 0.02
149 200 0.52
150 6 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (148 bp):
TTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACTTCTTCTTTAAGTCCAATATCGC
TGGCCTTGAATCAGCATATTGACGCCTTTGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATC
AACACATTGGCATTCTTC
Found at i:38474 original size:13 final size:13
Alignment explanation
Indices: 38456--38482 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38446 ATTACTCAAA
38456 TGTATCGATACAT
1 TGTATCGATACAT
38469 TGTATCGATACAT
1 TGTATCGATACAT
38482 T
1 T
38483 TGATCTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:45848 original size:84 final size:82
Alignment explanation
Indices: 45637--46274 Score: 355
Period size: 84 Copynumber: 7.6 Consensus size: 82
45627 CCTCACTTTG
* * * * * * * * *
45637 ACCTTCATCCATTATTTACATGTCGGCTCAATCATCGGTAAACCCTTTCTTTCTTTAGTGACCTA
1 ACCTTCATCCATTATTTACCTATCAGCTTAGTCCTCGGTAAACCCTTAC-CT-TTTGGTGACCTA
* *
45702 TTAGCTTAGTC-CTCGGTTA
64 TTAGCTTAGTCTC-CTGTCA
* ** * *
45721 ACCCTTTATCCATCGTTTACCTGAT-GGCTTAGTCCTCGATAAACCCATTACCTTTGTGGTGACC
1 A-CCTTCATCCATTATTTACCT-ATCAGCTTAGTCCTCGGTAAACCC-TTACCTTT-TGGTGACC
*
45785 TGTTAGCTTAGTCTCCTGTCA
62 TATTAGCTTAGTCTCCTGTCA
* * *
45806 ACCTTCATCCATTATTTACCTATCAGCTCAGTCCTCGGTAAACCTCTTATCTCTTTAGTGACCTA
1 ACCTTCATCCATTATTTACCTATCAGCTTAGTCCTCGGTAAACC-CTTACCT-TTTGGTGACCTA
* *
45871 TCAGCTTAGTCCCCTGTCA
64 TTAGCTTAGTCTCCTGTCA
* * ** * * * *
45890 ACCTTTTATCCATTTTTTATTTGTC-GACTTAGTTCC-CGGCAAAACCCATTGCCTTTATGGCGA
1 ACC-TTCATCCATTATTTACCTATCAG-CTTAG-TCCTCGG-TAAACCC-TTACCTTT-TGGTGA
* * * *
45953 CCTGTCAGCTCAGTCTCCAGTCA
60 CCTATTAGCTTAGTCTCCTGTCA
* * *
45976 ACCTTCATCCATTATTTACCTATCGGCTTAGTCCCCGGTAAACCCCTT-CTCTCTTTGGTGACTT
1 ACCTTCATCCATTATTTACCTATCAGCTTAGTCCTCGGTAAA-CCCTTAC-CT-TTTGGTGACCT
* * *
46040 GTTAGCTCAATCT-CTAGTCA
63 ATTAGCTTAGTCTCCT-GTCA
* * * * * * ** *
46060 ACCTTCTTCCGTTGTTTACTTATCAGCTTAATCC-CTAGTAAATCCCTTTTCTCCTTGGTGACCT
1 ACCTTCATCCATTATTTACCTATCAGCTTAGTCCTC-GGTAAA-CCCTTACCT-TTTGGTGACCT
* *
46124 ATTA-ATTCAGTCTCCAGTCA
63 ATTAGCTT-AGTCTCCTGTCA
* * * *
46144 ACCTTCATCCATTGTTTA-CT-TGACGACTTAGTCCTCGATAAACCCATTACCCTTATGGTGACC
1 ACCTTCATCCATTATTTACCTATCA-G-CTTAGTCCTCGGTAAACCC-TTA-CCTTTTGGTGACC
* * * * *
46207 TATCAACTCAGTCT-TTGGTTA
62 TATTAGCTTAGTCTCCT-GTCA
* * * *
46228 ACCTCCATCCAATGTTTACCTATC-GACTTAATCCTCGGTAAACCCTT
1 ACCTTCATCCATTATTTACCTATCAG-CTTAGTCCTCGGTAAACCCTT
46275 TCTTCCTTGA
Statistics
Matches: 431, Mismatches: 90, Indels: 67
0.73 0.15 0.11
Matches are distributed among these distances:
82 2 0.00
83 13 0.03
84 248 0.58
85 123 0.29
86 45 0.10
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (82 bp):
ACCTTCATCCATTATTTACCTATCAGCTTAGTCCTCGGTAAACCCTTACCTTTTGGTGACCTATT
AGCTTAGTCTCCTGTCA
Found at i:45893 original size:43 final size:41
Alignment explanation
Indices: 45779--45903 Score: 124
Period size: 43 Copynumber: 3.0 Consensus size: 41
45769 TACCTTTGTG
* * * *
45779 GTGACCTGTTAGCTTAGTCTCCTGTCAACCTTCATCCATTA
1 GTGACCTATCAGCTTAGTCCCCTGTCAACCTTTATCCATTA
* * * * * * *
45820 TTTACCTATCAGCTCAGTCCTCGGTAAACCTCTTATCTCTTTA
1 GTGACCTATCAGCTTAGTCCCCTGTCAACCT-TTATC-CATTA
45863 GTGACCTATCAGCTTAGTCCCCTGTCAACCTTTTATCCATT
1 GTGACCTATCAGCTTAGTCCCCTGTCAACC-TTTATCCATT
45904 TTTTATTTGT
Statistics
Matches: 63, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
41 22 0.35
42 7 0.11
43 33 0.52
44 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (41 bp):
GTGACCTATCAGCTTAGTCCCCTGTCAACCTTTATCCATTA
Found at i:45993 original size:170 final size:167
Alignment explanation
Indices: 45637--46037 Score: 475
Period size: 170 Copynumber: 2.4 Consensus size: 167
45627 CCTCACTTTG
* * * *
45637 ACCTTCATCCATTATTTACATGTCGGCTCAATCATCGGTAAACCCTTTCTTTCTTTAGTGACCTA
1 ACCTTCATCCATTATTTACCTATCGGCTCAGTCCTCGGTAAACCCTTTC--TCTTTAGTGACCTA
* * * *
45702 TTAGCTTAGTCCTCGGTTAACCCTTTATCCATCGTTTACCTGATGGCTTAGTCCTCGATAAACCC
64 TCAGCTTAGTCCCCGGTCAACCCTTTATCCATCGTTTACCTGATGACTTAGTCCTCGATAAACCC
* * * * *
45767 ATTACCTTTGTGGTGACCTGTTAGCTTAGTCTCCTGTCA
129 ATTACCTTTATGGCGACCTGTCAGCTCAGTCTCCAGTCA
*
45806 ACCTTCATCCATTATTTACCTATCAGCTCAGTCCTCGGTAAACCTCTTATCTCTTTAGTGACCTA
1 ACCTTCATCCATTATTTACCTATCGGCTCAGTCCTCGGTAAACC-CTT-TCTCTTTAGTGACCTA
* * ** **
45871 TCAGCTTAGTCCCCTGTCAACCTTTTATCCATTTTTTATTTG-TCGACTTAGTTCC-CGGCA-AA
64 TCAGCTTAGTCCCCGGTCAACCCTTTATCCATCGTTTACCTGAT-GACTTAG-TCCTC-G-ATAA
*
45933 ACCCATTGCCTTTATGGCGACCTGTCAGCTCAGTCTCCAGTCA
125 ACCCATTACCTTTATGGCGACCTGTCAGCTCAGTCTCCAGTCA
* * *
45976 ACCTTCATCCATTATTTACCTATCGGCTTAGTCCCCGGTAAACCCCTTCTCTCTTTGGTGAC
1 ACCTTCATCCATTATTTACCTATCGGCTCAGTCCTCGGTAAA-CCCTT-TCTCTTTAGTGAC
46038 TTGTTAGCTC
Statistics
Matches: 199, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
168 1 0.01
169 93 0.47
170 100 0.50
171 5 0.03
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (167 bp):
ACCTTCATCCATTATTTACCTATCGGCTCAGTCCTCGGTAAACCCTTTCTCTTTAGTGACCTATC
AGCTTAGTCCCCGGTCAACCCTTTATCCATCGTTTACCTGATGACTTAGTCCTCGATAAACCCAT
TACCTTTATGGCGACCTGTCAGCTCAGTCTCCAGTCA
Found at i:46146 original size:254 final size:252
Alignment explanation
Indices: 45736--46277 Score: 571
Period size: 254 Copynumber: 2.1 Consensus size: 252
45726 TTATCCATCG
* * *
45736 TTTACCTGAT-GGCTTAGTCCTCGATAAACCCATTAC-CTTTGTGGTGACCTGTTAGCTTAGTCT
1 TTTACCT-ATCGGCTTAGTCCTCGGTAAACCCATT-CTCTTTGTGGTGACCTGTTAGCTCAATCT
* * *
45799 CCTGTCAACCTTCATCCATTATTTACCTATCAGCTCAGTCCTCGGTAAACCTCTTATCTCTTTAG
64 CCTGTCAACCTTCATCCATTATTTACCTATCAGCTCAATCCTCAGTAAACCTCTTATCTCCTTAG
* * * * * *
45864 TGACCTATCAGCTTAGTCCCCTGTCAACCTTTTATCCATTTTTTATTTGTCGACTTAGTTCC-CG
129 TGACCTATCAGATTAGTCCCCAGTCAACC-TTCATCCATTGTTTACTTGACGACTTAG-TCCTC-
* * * * * *
45928 GCA-AAACCCATTGCCTTTATGGCGACCTGTCAGCTCAGTCTCCAGTCAACCTTCATCCATTA
191 G-ATAAACCCATTACCCTTATGGCGACCTATCAACTCAGTCTCCAGTCAACCTCCATCCAATA
* * *
45990 TTTACCTATCGGCTTAGTCCCCGGTAAACCCCTTCTCTCTT-TGGTGACTTGTTAGCTCAATCT-
1 TTTACCTATCGGCTTAGTCCTCGGTAAACCCATTCTCT-TTGTGGTGACCTGTTAGCTCAATCTC
* * * * * *
46053 CTAGTCAACCTTCTTCCGTTGTTTACTTATCAGCTTAATCC-CTAGTAAATCC-CTTTTCTCCTT
65 CT-GTCAACCTTCATCCATTATTTACCTATCAGCTCAATCCTC-AGTAAA-CCTCTTATCTCCTT
* * *
46116 GGTGACCTATTA-ATTCAGTCTCCAGTCAACCTTCATCCATTGTTTACTTGACGACTTAGTCCTC
127 AGTGACCTATCAGATT-AGTCCCCAGTCAACCTTCATCCATTGTTTACTTGACGACTTAGTCCTC
* *** * *
46180 GATAAACCCATTACCCTTATGGTGACCTATCAACTCAGTCTTTGGTTAACCTCCATCCAATG
191 GATAAACCCATTACCCTTATGGCGACCTATCAACTCAGTCTCCAGTCAACCTCCATCCAATA
* * *
46242 TTTACCTATCGACTTAATCCTCGGTAAACCCTTTCT
1 TTTACCTATCGGCTTAGTCCTCGGTAAACCCATTCT
46278 TCCTTGATGA
Statistics
Matches: 239, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
251 1 0.00
252 83 0.35
253 33 0.14
254 118 0.49
255 4 0.02
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.37
Consensus pattern (252 bp):
TTTACCTATCGGCTTAGTCCTCGGTAAACCCATTCTCTTTGTGGTGACCTGTTAGCTCAATCTCC
TGTCAACCTTCATCCATTATTTACCTATCAGCTCAATCCTCAGTAAACCTCTTATCTCCTTAGTG
ACCTATCAGATTAGTCCCCAGTCAACCTTCATCCATTGTTTACTTGACGACTTAGTCCTCGATAA
ACCCATTACCCTTATGGCGACCTATCAACTCAGTCTCCAGTCAACCTCCATCCAATA
Found at i:46325 original size:42 final size:42
Alignment explanation
Indices: 46245--46325 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
46235 TCCAATGTTT
* * * *
46245 ACCTATCGACTTAATCCTCGGTAAACCCTTTCTTCCTTGATG
1 ACCTATCGACTTAATCCCCGATAAACCCTTTATCCCTTGATG
* * *
46287 ACCTATCGGCTTAGTCCCCGATCAACCCTTTATCCCTTG
1 ACCTATCGACTTAATCCCCGATAAACCCTTTATCCCTTG
46326 TTTACCAGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (42 bp):
ACCTATCGACTTAATCCCCGATAAACCCTTTATCCCTTGATG
Found at i:47712 original size:19 final size:18
Alignment explanation
Indices: 47686--47725 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
47676 TTTATTCATC
47686 TTCATAAAATTTTCATTT
1 TTCATAAAATTTTCATTT
*
47704 TTCATTAAAATTTTCCTTT
1 TTCA-TAAAATTTTCATTT
47723 TTC
1 TTC
47726 TGAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCATAAAATTTTCATTT
Found at i:47888 original size:164 final size:162
Alignment explanation
Indices: 47600--48089 Score: 524
Period size: 163 Copynumber: 3.0 Consensus size: 162
47590 TGTTTTCGGA
** * *
47600 GGGATTTTTCTCTGTTTTTAATTTATAAAATTCATCAAATATTATTATTTAACTCAAATTAAATC
1 GGGATTTTTCT-TGTTTTTAATTT-TAAAATTCATCAAATATTATTATTTATTTCATATTAATTC
* * * * * *
47665 AATTTTC-AAAATTTATTCATCTTCATAAAATTTT-CA-TTTTTCATTAAAATTTTCCTTTTTCT
64 AGTTTTCAAAAATTCATTCAT-TTCAT-AAATTTTGAATTTTTTCCTTGAAA-TTTCCTTTTTTT
* * * *
47727 GAAATATAAAGTTTTCTATTCCGTAAATTGTTTCAAG
126 GAAATATAGAGTTTTCTACTCCATAAATTCTTTCAAG
** *
47764 GGTCTTTTTCTTGGTTTTTGAATTTTAAAATTTATCAAATATTATTATTTATTTCATATTAATTC
1 GGGATTTTTCTT-GTTTTT-AATTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTC
* *
47829 GGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAA-TCCCTTTTTTTTT
64 AGTTTTCAAAAATTCATTCATTT-CATAAATTTTGAATTTTTTCCTTGAAATTTCC--TTTTTTT
** *
47893 GAAATACGGAGTTTTCTACTCCATAAATTCTTTCGAG
126 GAAATATAGAGTTTTCTACTCCATAAATTCTTTCAAG
* * ** * *
47930 GGGATTTTTCTTTTTTCTTACTTTTAAAATTCAGAAAATATAATTATTTATTTCATATTAATTTA
1 GGGATTTTTCTTGTTT-TTAATTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCA
* *
47995 G--TTCAAAAATTCATTCGTTTTCATAAATTTTGAATTTTTTGCTTGAAATTTCCTTTTCTTTGA
65 GTTTTCAAAAATTCATTC-ATTTCATAAATTTTGAATTTTTTCCTTGAAATTTCCTTTT-TTTGA
* * *
48058 AAAATCGAGTTTTCTACTCCATAAATTTTTTC
128 AATATAGAGTTTTCTACTCCATAAATTCTTTC
48090 GGAAAAATTT
Statistics
Matches: 275, Mismatches: 39, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
162 4 0.01
163 75 0.27
164 73 0.27
165 64 0.23
166 59 0.21
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (162 bp):
GGGATTTTTCTTGTTTTTAATTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAG
TTTTCAAAAATTCATTCATTTCATAAATTTTGAATTTTTTCCTTGAAATTTCCTTTTTTTGAAAT
ATAGAGTTTTCTACTCCATAAATTCTTTCAAG
Found at i:48031 original size:163 final size:164
Alignment explanation
Indices: 47574--48090 Score: 473
Period size: 164 Copynumber: 3.1 Consensus size: 164
47564 ATTTCTCCTA
* * **
47574 TTTTTTACTCCGTAAATGT-TTTCGGA-GGGATTTTTCTCTGTTTTT-AATTTATAAAATTCATC
1 TTTTCTACTCCATAAAT-TCTTTC-GAGGGGATTTTTCT-TGTTTTTGAATTT-TAAAATTCAGA
* ** * * * *
47636 AAATATTATTATTTAACTCAAATTAAATCAATTTTC-AAAATTTATTCATCTT-CATAAAATTTT
62 AAATATAATTATTTATTTCATATTAATTC-AGTTTCAAAAATTCATTCAT-TTCCAT-AAATTTT
* * * * * * **
47699 -CA-TTTTTCATTAAAATTTTCCTTTT-TCTGAAATATAAAG
124 GAATTTTTTCCTTGAAA-TTCCCTTTTCTTTGAAAAATCGAG
* * * * ** * **
47738 TTTTCTATTCCGTAAATTGTTTCAAGGGTCTTTTTCTTGGTTTTTGAATTTTAAAATTTATCAAA
1 TTTTCTACTCCATAAATTCTTTCGAGGGGATTTTTCTT-GTTTTTGAATTTTAAAATTCAGAAAA
* *
47803 TATTATTATTTATTTCATATTAATTCGGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATT
65 TATAATTATTTATTTCATATTAATTCAG-TTTCAAAAATTCATTCATTTCCATAAATTTTGAATT
* *
47868 TTTTCCTTGAAA-TCCCTTTTTTTTTGAAATA-CGGAG
129 TTTTCCTTGAAATTCCC-TTTTCTTTGAAAAATC-GAG
* *
47904 TTTTCTACTCCATAAATTCTTTCGAGGGGATTTTTCTT-TTTTCTTACTTTTAAAATTCAGAAAA
1 TTTTCTACTCCATAAATTCTTTCGAGGGGATTTTTCTTGTTTT-TGAATTTTAAAATTCAGAAAA
* * *
47968 TATAATTATTTATTTCATATTAATTTAG-TTCAAAAATTCATTCGTTTTCATAAATTTTGAATTT
65 TATAATTATTTATTTCATATTAATTCAGTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTT
* *
48032 TTTGCTTGAAATTTCCTTTTCTTTGAAAAATCGAG
130 TTTCCTTGAAATTCCCTTTTCTTTGAAAAATCGAG
*
48067 TTTTCTACTCCATAAATTTTTTCG
1 TTTTCTACTCCATAAATTCTTTCG
48091 GAAAAATTTT
Statistics
Matches: 297, Mismatches: 41, Indels: 31
0.80 0.11 0.08
Matches are distributed among these distances:
163 85 0.29
164 93 0.31
165 66 0.22
166 53 0.18
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (164 bp):
TTTTCTACTCCATAAATTCTTTCGAGGGGATTTTTCTTGTTTTTGAATTTTAAAATTCAGAAAAT
ATAATTATTTATTTCATATTAATTCAGTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTT
TTCCTTGAAATTCCCTTTTCTTTGAAAAATCGAG
Found at i:48359 original size:18 final size:18
Alignment explanation
Indices: 48325--48365 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
48315 GGTTTCAACC
48325 TTTTAGTTTTTTAATTTA
1 TTTTAGTTTTTTAATTTA
*
48343 TTTTA-TTTTATTTATTTA
1 TTTTAGTTTT-TTAATTTA
48361 TTTTA
1 TTTTA
48366 CCTTTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTAGTTTTTTAATTTA
Found at i:49428 original size:170 final size:172
Alignment explanation
Indices: 49223--49585 Score: 412
Period size: 170 Copynumber: 2.1 Consensus size: 172
49213 AAGTGGTTAA
* * * *
49223 GGACTAAAATGCAAATATCCAAAGTTTAGGGACTTGTATGC-AAAACCGACTTTTGTTTAGAAAT
1 GGACCAAAATGCAAATATCTAAAGTATAGGGACTTGTATGCAAAAACCGACTTTTCTTTAGAAAT
* * ** * * * *
49287 GTTGTACATGGTCGAACCCAAGATATTTCTTTTATGTATTTTTGCTGCTGTTATTAAGCTGATTT
66 GTTGTACATGGCCAAACCCAAGATATTTCTTGGATG-AATTTTGCTACTGTTATTAAGCTAATAT
* * * * *
49352 CATGCTTTAAATGATGTGTTCTCTTTTTA-TTTGATGTATAG-
130 CATGCTTTAAATGATGAGTTCCCATGTTATTTTGAAGTATAGT
** *
49393 GGACCAAAATGCAAATATCTAAAGTATAGGGACTTGTATGCAAAAATTGATTTTTCTTTAGAAAT
1 GGACCAAAATGCAAATATCTAAAGTATAGGGACTTGTATGCAAAAACCGACTTTTCTTTAGAAAT
*** *** * * * *
49458 GTTGTGTTTGGCCAAATTTAAGATGTTTCTTGGCTGAATTTTGCTACTGTTGTTGAGCTAATATC
66 GTTGTACATGGCCAAACCCAAGATATTTCTTGGATGAATTTTGCTACTGTTATTAAGCTAATATC
49523 ATGCTTTAAATGATGAGTTCCCATGTTATTTTGAAGTATAGT
131 ATGCTTTAAATGATGAGTTCCCATGTTATTTTGAAGTATAGT
49565 GG-CCAAAATGCAAATA-CTAAA
1 GGACCAAAATGCAAATATCTAAA
49586 AAGTTTAGGG
Statistics
Matches: 160, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
170 90 0.56
171 68 0.43
172 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (172 bp):
GGACCAAAATGCAAATATCTAAAGTATAGGGACTTGTATGCAAAAACCGACTTTTCTTTAGAAAT
GTTGTACATGGCCAAACCCAAGATATTTCTTGGATGAATTTTGCTACTGTTATTAAGCTAATATC
ATGCTTTAAATGATGAGTTCCCATGTTATTTTGAAGTATAGT
Found at i:50222 original size:165 final size:156
Alignment explanation
Indices: 49782--50254 Score: 477
Period size: 165 Copynumber: 3.0 Consensus size: 156
49772 AAATTTTAAT
* *
49782 TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCATAGGGGTATAAAAGATTT--GAA--TTT
1 TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTA-GGGTATAAAAGATTTAAAAATTTTT
* * * *
49843 GTATCCTTTCGGGCTT-TCATTAGGGTACGAAATAGTATTTTGAAAAATAAATAAAATTAAATTG
65 GTATCCTTTCGGGCTTCT-ATTAGGATACGAAATGGTATTTTAAAAAATAAATAAAATTAAATTA
* *
49907 AATTAATACTTTC---AT--ATTAAATTT
129 AATTAATA-TTTCGGGATAAATTTAATTC
* * *
49931 TATTTTTT-TAATCTTTTGTATTCCTATGGCCATCCGTAGAGGTATAAAAGAGTTCAAAAATGTT
1 TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAG-GGTATAAAAGA-TTTAAAAAT-TT
* ** * * *
49995 TTCGTATCCTTCCAAGCTTCCATTA-GAGTATGAAATGGTATTTTCAAAAATAAATAAAATTAAA
63 TT-GTATCCTTTCGGGCTTCTATTAGGA-TACGAAATGGTATTTTAAAAAATAAATAAAATTAAA
*
50059 TTAAATTAGTATTATCGGGATAAATTCTAATATC
126 TTAAATTAATATT-TCGGGATAAATT-TAAT-TC
*
50093 TATTTTTTCTAATCTTTTATATTCCTATGGGTATCCGTCAGGGTATAAAAGATTTTAAAACAAAT
1 TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGT-AGGGTATAAAAGA-TTT--AA-AAAT
* *
50158 CTTTTGTATTCTTTCGGGGTTCTATTAGGATACGAAATGGTATTTTAAAAAATAAATAAAATTAA
61 -TTTTGTATCCTTTCGGGCTTCTATTAGGATACGAAATGGTATTTTAAAAAATAAATAAAATTAA
* *
50223 ATTCAATTAATATTTTTGGGA-AAATTTTAATT
125 ATTAAATTAATA-TTTCGGGATAAA-TTTAATT
50255 TTTTATATTC
Statistics
Matches: 264, Mismatches: 34, Indels: 38
0.79 0.10 0.11
Matches are distributed among these distances:
147 1 0.00
148 38 0.14
149 10 0.04
151 2 0.01
154 6 0.02
155 61 0.23
158 2 0.01
160 3 0.01
161 3 0.01
162 9 0.03
163 40 0.15
164 9 0.03
165 68 0.26
166 12 0.05
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (156 bp):
TATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGTATAAAAGATTTAAAAATTTTTG
TATCCTTTCGGGCTTCTATTAGGATACGAAATGGTATTTTAAAAAATAAATAAAATTAAATTAAA
TTAATATTTCGGGATAAATTTAATTC
Found at i:52181 original size:38 final size:38
Alignment explanation
Indices: 52130--52205 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52120 TAGTTAAATA
52130 CATAGAATATTTAAATACATAATTCCTTAACAGATAGT
1 CATAGAATATTTAAATACATAATTCCTTAACAGATAGT
52168 CATAGAATATTTAAATACATAATTCCTTAACAGATAGT
1 CATAGAATATTTAAATACATAATTCCTTAACAGATAGT
52206 TATTGATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (38 bp):
CATAGAATATTTAAATACATAATTCCTTAACAGATAGT
Found at i:55205 original size:20 final size:20
Alignment explanation
Indices: 55144--55239 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
55134 TTTTACCCAG
*
55144 ATGTATCGATA-ATTTTTCA
1 ATGTATCGATACATTCTTCA
* * * *
55163 GTGTATCGATACAAGT-ATGA
1 ATGTATCGATAC-ATTCTTCA
*
55183 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
55203 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
55223 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
55240 ATCTTTTTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
19 12 0.19
20 50 0.78
21 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:69067 original size:5 final size:5
Alignment explanation
Indices: 69052--69128 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
69042 TCCTTCATAC
* *
69052 CAAAA -AAAA CAAAA CAAAA CAAAA CAAAAA AAAAA CCAAGAA AAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA C-AAAA CAAAA -CAA-AA CAAAA
*
69099 CAAAA -AAAA -AAGA -AAAA C-AAA C-AAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
69129 AAGGGGTCCA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 22 0.37
5 28 0.47
6 8 0.13
7 2 0.03
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:69072 original size:10 final size:10
Alignment explanation
Indices: 69052--69128 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 10
69042 TCCTTCATAC
69052 CAAAA-AAAA
1 CAAAACAAAA
69061 CAAAACAAAA
1 CAAAACAAAA
69071 CAAAACAAAAA
1 CAAAAC-AAAA
*
69082 AAAAACCAAGAA
1 CAAAA-CAA-AA
*
69094 AAAAACAAAA
1 CAAAACAAAA
*
69104 -AAAA-AAGA
1 CAAAACAAAA
69112 -AAAAC-AAA
1 CAAAACAAAA
69120 C-AAACAAAA
1 CAAAACAAAA
69129 AAGGGGTCCA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
8 13 0.22
9 12 0.21
10 12 0.21
11 13 0.22
12 8 0.14
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (10 bp):
CAAAACAAAA
Found at i:69081 original size:11 final size:11
Alignment explanation
Indices: 69056--69123 Score: 70
Period size: 11 Copynumber: 6.3 Consensus size: 11
69046 TCATACCAAA
69056 AAAAACAAAAC
1 AAAAACAAAAC
69067 -AAAACAAAAC
1 AAAAACAAAAC
*
69077 AAAAAAAAAACC
1 AAAAACAAAA-C
69089 AAGAAA-AAAAC
1 AA-AAACAAAAC
* *
69100 AAAAAAAAAAG
1 AAAAACAAAAC
69111 AAAAAC-AAAC
1 AAAAACAAAAC
69121 AAA
1 AAA
69124 CAAAAAAGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
10 19 0.39
11 20 0.41
12 7 0.14
13 3 0.06
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAC
Found at i:69086 original size:21 final size:20
Alignment explanation
Indices: 69055--69130 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 20
69045 TTCATACCAA
69055 AAAAAACAAAACAAAACAAAAC
1 AAAAAA-AAAACAAAA-AAAAC
69077 AAAAAAAAAACCAAGAAAAAAAC
1 AAAAAAAAAA-C-A-AAAAAAAC
*
69100 AAAAAAAAAAGAAAAACAAAC
1 AAAAAAAAAACAAAAA-AAAC
69121 AAACAAAAAA
1 AAA-AAAAAA
69131 GGGGTCCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 13 0.27
23 16 0.33
24 3 0.06
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAACAAAAAAAAC
Found at i:69115 original size:33 final size:33
Alignment explanation
Indices: 69062--69130 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
69052 CAAAAAAAAC
* * *
69062 AAAACAAAACAAAACAAAAAAAAAACCAAGAAA
1 AAAACAAAACAAAAAAAAAAAAAAACAAACAAA
*
69095 AAAACAAAA-AAAAAAGAAAAACAAACAAACAAA
1 AAAACAAAACAAAAAA-AAAAAAAAACAAACAAA
69128 AAA
1 AAA
69131 GGGGTCCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (33 bp):
AAAACAAAACAAAAAAAAAAAAAAACAAACAAA
Found at i:70483 original size:29 final size:28
Alignment explanation
Indices: 70376--70828 Score: 437
Period size: 28 Copynumber: 15.7 Consensus size: 28
70366 CTAGAACGTT
* *
70376 CATCTTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
70404 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
70432 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
70460 CAT-CTCTTCAAAAGACCACAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
* * *
70489 CATCCTTTCAAAGCCTACAAGTTAGTGA
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
70517 CACCCTTTCAAACCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
70545 CATACCCTTTCAAAGCCTACAAGTCAATGG
1 CAT--CCTTTCAAAGCCCACAAGTCAGTGG
* *
70575 CA-CTTTTTCAAAGCCCACAAGGCAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
* * *
70603 CTTCTTTTCAAAGCCTACAAGTCA--GG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* *
70629 CATTCTTTCAAAAGCCTACAAGTCAGTGG
1 CATCCTTTC-AAAGCCCACAAGTCAGTGG
* *
70658 CATCCTTTTTAAAGCCCACGAGTCAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
* *
70687 CATCCTTTTTAAAGCCCACAAGTTAGTGG
1 CATCC-TTTCAAAGCCCACAAGTCAGTGG
* *
70716 CATCCTTTCAAAACCCACATAAGTCGGTGG
1 CATCCTTTCAAAGCCCAC--AAGTCAGTGG
* * *
70746 CAACTCTTTTTTCAAATCCTACAAGTCAGTGG
1 C-A-TC--CTTTCAAAGCCCACAAGTCAGTGG
* *
70778 CACCCTTTCAAAGCCCACACAAGTCGGTGG
1 CATCCTTTCAAAG-CC-CACAAGTCAGTGG
* *
70808 TAACTCTTTTCAAAGCCCACA
1 -CA-TCCTTTCAAAGCCCACA
70829 TAAGTTAGTG
Statistics
Matches: 356, Mismatches: 48, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.02
27 18 0.05
28 157 0.44
29 82 0.23
30 54 0.15
31 5 0.01
32 21 0.06
34 11 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:70715 original size:113 final size:110
Alignment explanation
Indices: 70376--70727 Score: 427
Period size: 113 Copynumber: 3.1 Consensus size: 110
70366 CTAGAACGTT
* * *
70376 CATCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTC
1 CATCCTTTCAAAGCCTACAAGTTA--GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
** *
70441 AAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGG
64 AAAGCCCACAAGTCAGTGGCATCT-TTTTAAAGCCCACAAGTCAGTGG
* *
70489 CATCCTTTCAAAGCCTACAAGTTAGTGACACCCTTTCAAACCCCACAAGTCAGTGGCATACCCTT
1 CATCCTTTCAAAGCCTACAAGTTAG-G-CATCCTTTCAAAGCCCACAAGTCAGTGGCAT--CCTT
* * *
70554 TCAAAGCCTACAAGTCAATGGCA-CTTTTTCAAAGCCCACAAGGCAGTGG
62 TCAAAGCCCACAAGTCAGTGGCATCTTTTT-AAAGCCCACAAGTCAGTGG
* * * * * *
70603 CTTCTTTTCAAAGCCTACAAGTCAGGCATTCTTTCAAAAGCCTACAAGTCAGTGGCATCCTTTTT
1 CATCCTTTCAAAGCCTACAAGTTAGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCC-TTTC
* *
70668 AAAGCCCACGAGTCAGTGGCATCCTTTTTAAAGCCCACAAGTTAGTGG
64 AAAGCCCACAAGTCAGTGGCAT-CTTTTTAAAGCCCACAAGTCAGTGG
70716 CATCCTTTCAAA
1 CATCCTTTCAAA
70728 ACCCACATAA
Statistics
Matches: 204, Mismatches: 26, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
111 3 0.01
112 29 0.14
113 100 0.49
114 47 0.23
115 25 0.12
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (110 bp):
CATCCTTTCAAAGCCTACAAGTTAGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
AGCCCACAAGTCAGTGGCATCTTTTTAAAGCCCACAAGTCAGTGG
Found at i:70779 original size:62 final size:61
Alignment explanation
Indices: 70634--70824 Score: 214
Period size: 62 Copynumber: 3.2 Consensus size: 61
70624 TCAGGCATTC
* * * *
70634 TTTCAAAAGCCTACAAGTCAGTGGCATCCTTTTTAAAGCCCAC-GAGTCAGTGGC-A-TCCTT
1 TTTC-AAAGCCTACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAAGTCGGTGGCAACTCTTT
* * *
70694 TTT-AAAGCCCACAAGTTAGTGGCATCCTTTCAAAACCCACATAAGTCGGTGGCAACTCTTT
1 TTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACA-AAGTCGGTGGCAACTCTTT
* * *
70755 TTTCAAATCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGTAACTC--T
1 TTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACA-AAGTCGGTGGCAACTCTTT
70815 TTTCAAAGCC
1 TTTCAAAGCC
70825 CACATAAGTT
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 11 0.10
58 22 0.20
59 9 0.08
60 14 0.13
61 7 0.06
62 48 0.43
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (61 bp):
TTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACAAAGTCGGTGGCAACTCTTT
Found at i:70824 original size:32 final size:32
Alignment explanation
Indices: 70646--70886 Score: 146
Period size: 32 Copynumber: 7.8 Consensus size: 32
70636 TCAAAAGCCT
* * *
70646 ACAAGTCAGTGGCATC-CTTTTTAAAG-CC-C
1 ACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
* * * *
70675 ACGAGTCAGTGGCATC-CTTTTTAAAG-CC-C
1 ACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
** * *
70704 ACAAGTTAGTGGC-A-TCCTTTCAAAACCCAC
1 ACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
* * *
70734 ATAAGTCGGTGGCAACTCTTTTTTCAAA-TCC-T
1 ACAAGTCGGTGGCAACTC--TTTTCAAAGCCCAC
* *
70766 ACAAGTCAGTGGC-AC-CCTTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
*
70796 ACAAGTCGGTGGTAACTCTTTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
* ** * *
70828 ATAAGTTAGTGGCAACTTTTTTGAAAAGCCCAC
1 ACAAGTCGGTGGCAACTCTTTT-CAAAGCCCAC
* * *
70861 GCAAGTCGATGGCAACCCTTTTCAAA
1 ACAAGTCGGTGGCAACTCTTTTCAAA
70887 TCACCACTTT
Statistics
Matches: 165, Mismatches: 35, Indels: 21
0.75 0.16 0.10
Matches are distributed among these distances:
28 14 0.08
29 43 0.26
30 23 0.14
31 5 0.03
32 47 0.28
33 26 0.16
34 7 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (32 bp):
ACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
Found at i:70839 original size:62 final size:60
Alignment explanation
Indices: 70381--70886 Score: 297
Period size: 56 Copynumber: 8.7 Consensus size: 60
70371 ACGTTCATCT
** * *
70381 TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCCTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * *
70437 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTCTTCAAAAGACCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTC-AAAGCCCACAAGTTAGTGGCACCC
* ** * * * *
70494 TTTCAAAG-CC-TACAAGTTAGTGAC-AC-CCTTTCAAACCCCACAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGC--ACCC
* ** ** ** *
70552 TTTCAAAG-CC-TACAAGTCAATGGC-ACT-TTTTCAAAGCCCACAAGGCAGTGGCTTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * * *
70608 TTTCAAAG-CC-TACAAGTC--AGGC-ATTC-TTTCAAAAGCCTACAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTC-AAAGCCCACAAGTTAGTGGCA-CCC
* * * * * *
70664 TTTTAAAG-CC-CACGAGTCAGTGGCATC-CTTTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * *
70721 TTTCAAAACCCACATAAGTCGGTGGCAACTCTTTTTTCAAATCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTC--TTTTCAAAGCCCACAAGTTAGTGGCACCC
* **
70783 TTTCAAAGCCCACACAAGTCGGTGGTAACTCTTTTCAAAGCCCACATAAGTTAGTGGCAACTTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC--AAGTTAGTGGC-AC-CC
* * * *
70847 TTTGAAAAGCCCACGCAAGTCGATGGCAACCCTTTTCAAA
1 TTT-CAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAA
70887 TCACCACTTT
Statistics
Matches: 365, Mismatches: 63, Indels: 35
0.79 0.14 0.08
Matches are distributed among these distances:
54 9 0.02
55 18 0.05
56 83 0.23
57 55 0.15
58 73 0.20
59 16 0.04
60 13 0.04
62 62 0.17
63 2 0.01
64 3 0.01
65 31 0.08
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (60 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:70860 original size:33 final size:32
Alignment explanation
Indices: 70378--70882 Score: 147
Period size: 28 Copynumber: 17.2 Consensus size: 32
70368 AGAACGTTCA
* *
70378 TCTTTTCAAAG-CC-CACAAGTTAGTGGC-A-
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70406 TCCTTTCAAAG-CC-CACAAGTTAGTGGC-A-
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70434 TCCTTTCAAAG-CC-CACAAGTCAGTGGCATC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* *
70464 TC-TTCAAAAG-AC-CACAAGTCAGTGGC-A-
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * * * *
70491 TCCTTTCAAAG-CC-TACAAGTTAGTGAC-AC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* *
70520 -CCTTTCAAA-CCC-CACAAGTCAGTGGCATAC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCA-AC
* * * *
70550 -CCTTTCAAAG-CC-TACAAGTCAATGGC-AC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70578 T-TTTTCAAAG-CC-CACAAGGCAGTGGC--T
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70605 TCTTTTCAAAG-CC-TACAAGTCA--GGC-AT
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70632 TCTTTCAAAAG-CC-TACAAGTCAGTGGCATC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70662 -CTTTTTAAAG-CC-CACGAGTCAGTGGCATC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70691 -CTTTTTAAAG-CC-CACAAGTTAGTGGCATC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70720 -CTTTCAAAA-CCCACATAAGTCGGTGGCAAC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70750 TCTTTTTTCAAA-TCC-TACAAGTCAGTGGC-AC
1 TC--TTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * * *
70781 -CCTTTCAAAGCCCACACAAGTCGGTGGTAAC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* * *
70812 TCTTTTCAAAGCCCACATAAGTTAGTGGCAAC
1 TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
* *
70844 TTTTTTGAAAAGCCCACGCAAGTC-GATGGCAAC
1 TCTTTT-AAAAGCCCACACAAGTCAG-TGGCAAC
*
70877 CCTTTT
1 TCTTTT
70883 CAAATCACCA
Statistics
Matches: 388, Mismatches: 64, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
26 3 0.01
27 24 0.06
28 142 0.37
29 87 0.22
30 52 0.13
31 5 0.01
32 43 0.11
33 32 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (32 bp):
TCTTTTAAAAGCCCACACAAGTCAGTGGCAAC
Found at i:73571 original size:51 final size:51
Alignment explanation
Indices: 73503--73673 Score: 184
Period size: 51 Copynumber: 3.4 Consensus size: 51
73493 TCAAAAATAA
* **
73503 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGC
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGATTTAGAAATAAAAC
* * * * * *
73554 CGGGGTTGGAGTGTCCCCGATTGT-GAGAAATTGGTGATTTGGAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTGTGGA-AAATCGATGATTTAGAAATAAAAC
* * * * *
73605 CAGAGTTGGAGTATCCCCGATTGTGGAAAATTGGT-ATTTTAAAAATAAAAT
1 CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGA-TTTAGAAATAAAAC
73656 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
73674 TGGGAAAAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
50 3 0.03
51 97 0.95
52 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGATTTAGAAATAAAAC
Found at i:76461 original size:40 final size:40
Alignment explanation
Indices: 76417--76517 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
76407 TGTCCCACTT
*
76417 TTGAGGACAAAGGAAAAGAG-AATGAAA-TAGGTCTCGCTCC
1 TTGAGGACAAAGGAAAAGAGAAAAGAAAGT--GTCTCGCTCC
* * * *
76457 TTGAGGTCAAAGGAAAAAAGAAAAGAAAGTGTCTTGCTTC
1 TTGAGGACAAAGGAAAAGAGAAAAGAAAGTGTCTCGCTCC
*
76497 TTGAGAACAAAGTGAAAAGAG
1 TTGAGGACAAAG-GAAAAGAG
76518 TATGTCCTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 36 0.72
41 13 0.26
42 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAGAGAAAAGAAAGTGTCTCGCTCC
Found at i:76616 original size:42 final size:43
Alignment explanation
Indices: 76521--76709 Score: 190
Period size: 42 Copynumber: 4.4 Consensus size: 43
76511 AAAAGAGTAT
* * *
76521 GTCCTGCTTTTTGAGGATAAAGGAAAAAAGGAAAACGAAA-TGC
1 GTCCTGCTCTTTGAGGATAAAGGAAAAGAGGAAAA-TAAAGTGC
* * *
76564 ATCCTACTCTTTGAGGATGAAA-G-AAAGAGGAAAATAAAGTAC
1 GTCCTGCTCTTTGAGGAT-AAAGGAAAAGAGGAAAATAAAGTGC
* * * *
76606 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGG-GAATGAAGTGT
1 GTCCTGCTCTTTGAGGA-TAAAG-GAAAAG-AGGAAAATAAAGTGC
* *
76651 GTCCTGCTCTTTGAGGACAAAGG-AGAGAGGAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGATAAAGGAAAAGAGGAAAATAAAGTGC
76693 GTCCTGCTCTTTGAGGA
1 GTCCTGCTCTTTGAGGA
76710 CAAAAAAAGT
Statistics
Matches: 120, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
41 6 0.05
42 58 0.48
43 17 0.14
44 8 0.07
45 28 0.23
46 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.22
Consensus pattern (43 bp):
GTCCTGCTCTTTGAGGATAAAGGAAAAGAGGAAAATAAAGTGC
Found at i:76813 original size:62 final size:61
Alignment explanation
Indices: 76686--76951 Score: 316
Period size: 61 Copynumber: 4.4 Consensus size: 61
76676 AGAGGAAAAT
** * * *
76686 AAAGTGCGTCCTGCTCTTTGAGGACAAAAAAAGTGCCACCAACTCGCGTGGGCTTTGAAAAAG
1 AAAG-GCGTCCTGCTCTTTGAGGAC-TGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
* * * *
76749 AAAGGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACTAACTTGTGTGGGCTTTGCAAAGAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAG
*
76811 AAA-GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAG-G
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
76870 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----A-
1 -AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
*
76927 AAAGGCATCCTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
76952 AGAGGGCGAA
Statistics
Matches: 180, Mismatches: 17, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
56 24 0.13
59 1 0.01
60 7 0.04
61 91 0.51
62 53 0.29
63 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAG
Found at i:77055 original size:55 final size:55
Alignment explanation
Indices: 76970--77105 Score: 204
Period size: 55 Copynumber: 2.5 Consensus size: 55
76960 AAAAGAGAGA
* *
76970 GCGTCCTGCTCTTTGAGGATTGGGAA-GTGCCACCAACTTATGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATGTGGGCTTTAAAAG
* *
77025 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAG
*
77080 GCGTCCTACTCTTTGAGGACT-AAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
77106 GTGAAAGAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 8 0.11
55 67 0.89
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAG
Found at i:77119 original size:149 final size:149
Alignment explanation
Indices: 76805--77207 Score: 533
Period size: 149 Copynumber: 2.6 Consensus size: 149
76795 TGGGCTTTGC
* * * *
76805 AAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1 AAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTT-TGTGGGCTTT---A--
76870 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAT
60 AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAT
* *
76935 CCTGCTCTTTGAGGACTAGAGGGCGA
124 CCTACTCTTTGAGGACTAAAGGGCGA
*
76961 AAAGAGAGAGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTATGTGGGCTTT-AAAAG
1 AAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTT-TGTGGGCTTTAAAAAG
* * *
77025 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACT
65 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACT
*
77090 CTTTGAGGACTAAAGGGTG-
130 CTTTGAGGACTAAAGGGCGA
* *
77109 AAAGAAGAGAGCGTCCTGCTCTTTAAGGACT-AGAAGGTGCCACCAACTTTGTGGGCTTTAAAAG
1 AAAG-AGAGAGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTTGTGGGCTTT--AA-
77173 GAGAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTG
61 -A-AAGGCGTCCTGCTCTTTGAGGACTGAAAAGTG
77208 AAAGGAGAAA
Statistics
Matches: 223, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
148 17 0.08
149 94 0.42
150 26 0.12
151 1 0.00
153 1 0.00
154 31 0.14
156 53 0.24
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (149 bp):
AAAGAGAGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTTGTGGGCTTTAAAAAGG
CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTC
TTTGAGGACTAAAGGGCGA
Found at i:78238 original size:16 final size:15
Alignment explanation
Indices: 78200--78258 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
78190 TTTTTCTTTG
78200 TTTTGTTTTTATT-TT
1 TTTTGTTTTT-TTATT
* *
78215 TTGATGTTTTTTTGCTT
1 TT-TTGTTTTTTT-ATT
78232 TTTTGTTTTTTTATT
1 TTTTGTTTTTTTATT
78247 TTTTGTTTTTTT
1 TTTTGTTTTTTT
78259 TTAAAAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
15 18 0.47
16 16 0.42
17 4 0.11
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTGTTTTTTTATT
Found at i:78243 original size:34 final size:32
Alignment explanation
Indices: 78189--78260 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 32
78179 CTTTTCTCTC
78189 TTTTTTCTTTGTTTTGTTTTTATTTTTTGATGT
1 TTTTTTCTTTGTTTTGTTTTTATTTTTTG-TGT
* *
78222 TTTTTTGCTTT-TTTGTTTTTTTATTTTTTGTTT
1 TTTTTT-CTTTGTTT-TGTTTTTATTTTTTGTGT
78255 TTTTTT
1 TTTTTT
78261 AAAAAAAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.04, C:0.03, G:0.10, T:0.83
Consensus pattern (32 bp):
TTTTTTCTTTGTTTTGTTTTTATTTTTTGTGT
Found at i:88263 original size:4 final size:4
Alignment explanation
Indices: 88254--88284 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
88244 GACTGTACAA
88254 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
88285 CACCTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:90390 original size:51 final size:51
Alignment explanation
Indices: 90324--90490 Score: 174
Period size: 51 Copynumber: 3.3 Consensus size: 51
90314 AAAAATAACA
**
90324 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGTCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATCG
* * * * * *
90375 GGGTTGGAGTGTCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATCG
** * * * * *
90426 AAGTTGGAGTATCCCCGATTGTGGAAAATTGGT-ATTTTAAAAATAAAATCA
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA-TTTAGAAATAAAATCG
*
90477 GGGTTGAAGTATCC
1 GGGTTGGAGTATCC
90491 TCTCGAAAAT
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
51 95 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAATCG
Found at i:90622 original size:28 final size:28
Alignment explanation
Indices: 90582--90655 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
90572 GATATAAAGC
*
90582 CGGGGTTAGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCC-CGAGAAATAA
90610 CGGGGTTGGAGTAT-CCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCGA-GAAATAA
90638 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
90656 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 33 0.79
29 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCGAGAAATAA
Found at i:90701 original size:107 final size:105
Alignment explanation
Indices: 90428--90703 Score: 311
Period size: 107 Copynumber: 2.6 Consensus size: 105
90418 TAAAATCGAA
* * * *
90428 GTTGGAGTATCCCCGATTGTGGAAAATTGGTATTTTAAAAATAAAATCAGGGTTGAAGTATCCTC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTT--AGATAAAATCAGGGTTGGAGTATCCCC
* *
90493 TCGAAAATAACGGGATTGGAGTATCCTCGATGACATAACGGG
64 TCGAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGG
* * *** * * *
90535 GTTGGAGTA-CCCTTGATTATGAAAAATCAATATTTTAGATATAAAGCCGGGGTTAGAGTATCCC
1 GTTGGAGTATCCC-CGATTGTGAAAAATTGGTATTTTAGATA-AAA-TCAGGGTTGGAGTATCCC
*
90599 CTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGG
63 CTCGAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGG
* * * *
90642 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGGAGTAAAATCAGAGTTGGAGTATC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTT-AGA-TAAAATCAGGGTTGGAGTATC
90704 TCCGATTGCG
Statistics
Matches: 136, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
105 4 0.03
106 6 0.04
107 116 0.85
108 8 0.06
109 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (105 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGATAAAATCAGGGTTGGAGTATCCCCTC
GAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGG
Found at i:90702 original size:51 final size:51
Alignment explanation
Indices: 90642--90809 Score: 158
Period size: 51 Copynumber: 3.3 Consensus size: 51
90632 AAATAACGGG
* * * *
90642 GTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGGAGTAAAATCAGA
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCAGA
* * * ** * * * *
90693 GTTGGAGTATCTCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCAGA
* ** * * *
90744 GTTGGAGTAT-CCCAATTAAGAAAAATTGATGTTTTGGAAATGGAACCGGG
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCAGA
90794 GTTGGAGTATCCCCAA
1 GTTGGAGTATCCCCAA
90810 GATGAAAAAT
Statistics
Matches: 91, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
50 37 0.41
51 54 0.59
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCAGA
Found at i:93120 original size:20 final size:20
Alignment explanation
Indices: 93097--93150 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
93087 TACATTGTAA
93097 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
93117 AATGTATCGATATAATGAGC
1 AATGTATCGATACAATGAGC
93137 AATGTATCGATACA
1 AATGTATCGATACA
93151 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:93184 original size:13 final size:13
Alignment explanation
Indices: 93166--93195 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
93156 GTAAACCCAG
93166 AATGTATCGATAC
1 AATGTATCGATAC
93179 AATGTATCGATAC
1 AATGTATCGATAC
93192 AATG
1 AATG
93196 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:96781 original size:27 final size:25
Alignment explanation
Indices: 96734--96785 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
96724 TATTTGCAAG
*
96734 AAAAATAGAGTTGAAGCATCCTCTCA
1 AAAAATAAAGTTGAAGCATCC-CTCA
* *
96760 AAAAGATAAAGTTGGAGTATCCCTCA
1 AAAA-ATAAAGTTGAAGCATCCCTCA
96786 GGGATGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (25 bp):
AAAAATAAAGTTGAAGCATCCCTCA
Found at i:97590 original size:21 final size:20
Alignment explanation
Indices: 97566--97608 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
97556 TCGAGTTCTG
*
97566 ATAAAAAAATTGTATCGATAC
1 ATAAAAAAA-TGTATAGATAC
**
97587 ATAAGTAAATGTATAGATAC
1 ATAAAAAAATGTATAGATAC
97607 AT
1 AT
97609 TCCCATATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (20 bp):
ATAAAAAAATGTATAGATAC
Found at i:99560 original size:15 final size:15
Alignment explanation
Indices: 99535--99569 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
99525 GAATAAATCA
*
99535 AAAATTGTTGAAAAT
1 AAAATTCTTGAAAAT
*
99550 GAAATTCTTGAAAAT
1 AAAATTCTTGAAAAT
99565 AAAAT
1 AAAAT
99570 AGTTAAACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (15 bp):
AAAATTCTTGAAAAT
Found at i:105480 original size:21 final size:22
Alignment explanation
Indices: 105450--105492 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
105440 AGAAAGCATT
105450 AAAAATTTTTATTAAGGGGGAG
1 AAAAATTTTTATTAAGGGGGAG
105472 AAAAA-TTTTATTAAGGGGGAG
1 AAAAATTTTTATTAAGGGGGAG
105493 TTATATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
AAAAATTTTTATTAAGGGGGAG
Found at i:106220 original size:13 final size:13
Alignment explanation
Indices: 106202--106226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106192 AAACTCATGT
106202 TGTATCGATACAA
1 TGTATCGATACAA
106215 TGTATCGATACA
1 TGTATCGATACA
106227 TAAGGATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:106263 original size:20 final size:19
Alignment explanation
Indices: 106213--106266 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
106203 GTATCGATAC
106213 AATGTATCGATACATAAGG
1 AATGTATCGATACATAAGG
* * *
106232 ATTGTATTGATACAT-GGTG
1 AATGTATCGATACATAAG-G
106251 AAATGTATCGATACAT
1 -AATGTATCGATACAT
106267 TGAGCCCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
20 13 0.46
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATAAGG
Found at i:108614 original size:13 final size:13
Alignment explanation
Indices: 108596--108623 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
108586 TTTCACTATA
108596 TATCGATACAATG
1 TATCGATACAATG
108609 TATCGATACAATG
1 TATCGATACAATG
108622 TA
1 TA
108624 CCATGTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:108765 original size:20 final size:21
Alignment explanation
Indices: 108742--108780 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
108732 CAAAGCAATA
*
108742 TGTATCGATAC-TTCTAGGTT
1 TGTATCAATACTTTCTAGGTT
108762 TGTATCAATACTTTCTAGG
1 TGTATCAATACTTTCTAGG
108781 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (21 bp):
TGTATCAATACTTTCTAGGTT
Found at i:109429 original size:19 final size:21
Alignment explanation
Indices: 109384--109448 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
109374 TCCCCCTTAA
*
109384 TTTAAAATTTTTCTCCCCATT
1 TTTAAAATTTCTCTCCCCATT
**
109405 AATAAAATTTCT-TCCCC-TT
1 TTTAAAATTTCTCTCCCCATT
* * *
109424 TTTAAAAATATCTTTCCCCCTT
1 TTT-AAAATTTCTCTCCCCATT
109446 TTT
1 TTT
109449 GTTTCCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.09
20 13 0.37
21 14 0.40
22 5 0.14
ACGTcount: A:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAAATTTCTCTCCCCATT
Found at i:109497 original size:22 final size:23
Alignment explanation
Indices: 109463--109514 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
109453 CCAAAATAGT
* *
109463 CCTTTTTATAAAACA-ATTTATCC
1 CCTTTTTACAAAA-ATATCTATCC
109486 CCTTTTT-CAAAAATATCTATCC
1 CCTTTTTACAAAAATATCTATCC
109508 CCTTTTT
1 CCTTTTT
109515 TGTTTCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.69
23 7 0.27
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (23 bp):
CCTTTTTACAAAAATATCTATCC
Found at i:109534 original size:66 final size:67
Alignment explanation
Indices: 109417--109563 Score: 226
Period size: 67 Copynumber: 2.2 Consensus size: 67
109407 TAAAATTTCT
* *
109417 TCCCCTTTTT-AAAAATATCTTTCCCCCTTTTTGTTTCCAAAATAGTCCTTTTTATAAAACAATT
1 TCCCCTTTTTCAAAAATATCTATCCCCCTTTTTGTTTCCAAAATAATCCTTTTTATAAAACAATT
109481 TA
66 TA
*
109483 TCCCCTTTTTCAAAAATATCTATCCCCTTTTTTGTTTCCAAAATAAT-CTTTTTATAAAACAATT
1 TCCCCTTTTTCAAAAATATCTATCCCCCTTTTTGTTTCCAAAATAATCCTTTTTATAAAACAATT
*
109547 TC
66 TA
*
109549 TCCCTATTTTTCAAA
1 TCCC-CTTTTTCAAA
109564 TTTATTTTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
66 32 0.43
67 42 0.57
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (67 bp):
TCCCCTTTTTCAAAAATATCTATCCCCCTTTTTGTTTCCAAAATAATCCTTTTTATAAAACAATT
TA
Done.