Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 5 of 38
Found at i:743236 original size:32 final size:33
Alignment explanation
Indices: 743176--743244 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
743166 TTCAACGATT
* *
743176 TGTATTGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATAAAA
*
743209 TGTATCGATACAT-AAGTTTTGTATCGATAAAA
1 TGTATCGATACATAAAGTGTTGTATCGATAAAA
743241 TGTA
1 TGTA
743245 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATAAAA
Found at i:743300 original size:13 final size:13
Alignment explanation
Indices: 743282--743306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
743272 ATTACTCAAA
743282 TGTATCGATACAT
1 TGTATCGATACAT
743295 TGTATCGATACA
1 TGTATCGATACA
743307 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:745556 original size:27 final size:27
Alignment explanation
Indices: 745526--745596 Score: 142
Period size: 27 Copynumber: 2.6 Consensus size: 27
745516 TTTATTCACC
745526 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
745553 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
745580 GGGGACACTCCAACCCC
1 GGGGACACTCCAACCCC
745597 GTTTTCAACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.23, C:0.45, G:0.20, T:0.13
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:757753 original size:28 final size:28
Alignment explanation
Indices: 757666--758045 Score: 412
Period size: 28 Copynumber: 13.5 Consensus size: 28
757656 TCCAACTTAA
* **
757666 GTGGGCTTTAGAGAAAGTTGCCACCAACTT
1 GTGGGCTTT-GA-AAAGGTGCCACTGACTT
757696 GTATGGGCTTTG-AAAGGATGCCACT-ACTT
1 G--TGGGCTTTGAAAAGG-TGCCACTGACTT
* *
757725 GTGGACTTTGAAAAGATGCCACTGACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
*
757753 GTGGGCATT-AAGAAGGTGCCACTGACTT
1 GTGGGCTTTGAA-AAGGTGCCACTGACTT
* * *
757781 GTGGACTTTGAAATGGGTGCCACAGACTT
1 GTGGGCTTTGAAA-AGGTGCCACTGACTT
** *
757810 GTGGGCTTTGGGAAGGTGCCACTAACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
*
757838 GTGGGCTTTGAAAAGGTGCCACCGACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
*
757866 GTGGGCTTCGAAAA--TGCCACTGACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
* *
757892 ATGGGCTTTGAGAAGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
** *
757920 ACGAGCTTTGAAAAGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
*
757948 GTGGGCTTTGAAAAGGTGCCACTGACGT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
** *
757976 GTGGGCTTTG-AAAGGATGCCGTTGACAT
1 GTGGGCTTTGAAAAGG-TGCCACTGACTT
* * *
758004 GCGGGCTTTGAGAAGGTGCCACTAACTT
1 GTGGGCTTTGAAAAGGTGCCACTGACTT
758032 GTGGGCTTTGAAAA
1 GTGGGCTTTGAAAA
758046 CAGGTCGTAT
Statistics
Matches: 294, Mismatches: 44, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
26 22 0.07
27 22 0.07
28 196 0.67
29 38 0.13
30 7 0.02
31 1 0.00
32 8 0.03
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (28 bp):
GTGGGCTTTGAAAAGGTGCCACTGACTT
Found at i:759235 original size:11 final size:11
Alignment explanation
Indices: 759201--759272 Score: 69
Period size: 11 Copynumber: 6.7 Consensus size: 11
759191 ATCCGGACCC
*
759201 TTTTTGTTGTT
1 TTTTTTTTGTT
**
759212 TGCTTTTTGTT
1 TTTTTTTTGTT
759223 TTTTTTTTG--
1 TTTTTTTTGTT
759232 -TTTTTTTGTT
1 TTTTTTTTGTT
*
759242 ATTTTTTTGTGT
1 TTTTTTTTGT-T
*
759254 TTTTTTGTGTT
1 TTTTTTTTGTT
759265 TTTTTTTT
1 TTTTTTTT
759273 TTTGCGGAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
8 8 0.16
11 32 0.65
12 9 0.18
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:759292 original size:1 final size:1
Alignment explanation
Indices: 759215--759275 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
759205 TGTTGTTTGC
* * * * * * * *
759215 TTTTTGTTTTTTTTTTGTTTTTTTGTTATTTTTTTGTGTTTTTTTGTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
759276 GCGGAGGATG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:770172 original size:19 final size:18
Alignment explanation
Indices: 770148--770210 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
770138 ATTGATATAA
770148 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
770167 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
770180 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
770199 TGTATCGATACA
1 TGTATCGATACA
770211 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:770182 original size:32 final size:32
Alignment explanation
Indices: 770134--770218 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
770124 TTTCAACAAT
* *
770134 TTGTATTGATATAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
770166 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
770198 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
770219 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:770190 original size:13 final size:13
Alignment explanation
Indices: 770167--770191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
770157 ACATAAGTGT
770167 TGTATCGATACAA
1 TGTATCGATACAA
770180 TGTATCGATACA
1 TGTATCGATACA
770192 TAAGTTTTGT
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:777202 original size:13 final size:13
Alignment explanation
Indices: 777186--777210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
777176 AGTCAAAAGT
777186 AAACACAAAAAAC
1 AAACACAAAAAAC
777199 AAACACAAAAAA
1 AAACACAAAAAA
777211 GTGCAAGGCA
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:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACACAAAAAAC
Found at i:778558 original size:31 final size:32
Alignment explanation
Indices: 778489--778570 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 32
778479 CTTCAAATAC
*
778489 CTTCTT-AAAGTCCACGACTCAATGGCAATCT
1 CTTCTTCAAAGTCCACGACTCAATAGCAATCT
* *
778520 CTT-TTCAAAGTCTACGACTCAGTAGC-ATCT
1 CTTCTTCAAAGTCCACGACTCAATAGCAATCT
* * *
778550 TTTCTTCAAAGCCCACAACTC
1 CTTCTTCAAAGTCCACGACTC
778571 TGTGGCACTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 8 0.19
31 34 0.81
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.30
Consensus pattern (32 bp):
CTTCTTCAAAGTCCACGACTCAATAGCAATCT
Found at i:778588 original size:33 final size:31
Alignment explanation
Indices: 778549--778652 Score: 91
Period size: 34 Copynumber: 3.1 Consensus size: 31
778539 CAGTAGCATC
* *
778549 TTTTCTTCAAAGCCCACAACTCTGTGGCACTCT
1 TTTTCTTC-AAGCCCACAACTCCGTGGCAC-CA
*
778582 TTTTCTTTTCAAGTCCACAACTCCGTGGCACCA
1 TTTTC--TTCAAGCCCACAACTCCGTGGCACCA
* * *
778615 TTTTCTTTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTC---TTCAAGCCCACAACTCCGTGGCACCA
778649 TTTT
1 TTTT
778653 AAGTCCACAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
33 11 0.17
34 49 0.78
35 3 0.05
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.38
Consensus pattern (31 bp):
TTTTCTTCAAGCCCACAACTCCGTGGCACCA
Found at i:778602 original size:34 final size:33
Alignment explanation
Indices: 778562--778688 Score: 131
Period size: 34 Copynumber: 3.9 Consensus size: 33
778552 TCTTCAAAGC
*
778562 CCACAACTCTGTGGCACTCTTTTTCTTTTCAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCTTTTCAAGT
* *
778596 CCACAACTCCGTGGCACCATTTTCTTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTC-TTTTCAAGT
778630 CCACAACTCCGTGGCACC-----CTTTT-AAGT
1 CCACAACTCCGTGGCACCTTTTTCTTTTCAAGT
* * *
778657 CCACAACTCTGTGGCATCTTTCTCCTTTTCAA
1 CCACAACTCCGTGGCACCTTT-TTCTTTTCAA
778689 AAGCCCACAC
Statistics
Matches: 80, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
27 20 0.25
28 4 0.05
29 1 0.01
33 11 0.14
34 44 0.55
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTTCTTTTCAAGT
Found at i:778901 original size:101 final size:99
Alignment explanation
Indices: 778717--779609 Score: 945
Period size: 101 Copynumber: 8.9 Consensus size: 99
778707 GGCATCTTCT
* * *
778717 TTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACC-TT-ATCTTTAAAACCAATGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATGTC
*
778780 GCTGGCCATGAATCAGCACATTGGCACCTTCATC
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
778814 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCATTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGACCAATG
778879 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
64 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
778915 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGACCAATG
* * *
778980 TCGATGGCCTTGAATCAGCACATTAGCATCTTCATC
64 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * * * * *
779016 TTTAAGTCCAATGTCG-TCGGCCTTAAATCAACACATTGGCATC-TTCATCTTTAAGACCGATAT
1 TTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATGT
* *
779079 CGCTGGCCTTGAATCAGCATATTGGCGCCTTCTTCATC
65 CGCTGGCCTTGAATCAGCACATTGGC-AC--CTTCATC
* * * * * * *
779117 TTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGAACC-TTCATCTTTAAGACCGATATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATGTC
* * *
779181 GCTGGCCTTGAATCAACAAATTGGCGCCTTCTTCATC
66 GCTGGCCTTGAATCAGCACATTGGC-AC--CTTCATC
* * * * * * * *
779218 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTT-ATCTTTAAGTCGAATGTA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATGTC
*
779282 GCTGGCCTTAAATCAGCACATTGGCACCTTCATC
66 GCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* ** *
779316 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCATTATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--TCATCTTTAAGACCAATG
* * *
779381 TCGCTGGCCTTGAATCAGCATATTGACATCTTCATC
64 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * * *
779417 TTTAAGTCCAATGTCGCTGGCCTTGAATTAGCAAATTGGCACC-TTCATCTTTAAGTCCAATATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATGTC
* * * *
779481 GCTGGCCTTGAATTAGCATATTGGCGTCTTCGTCATC
66 GCTGGCCTTGAATCAGCACATTGGC-AC--CTTCATC
** * * * * * * *
779518 TTTAAAACCTAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAAA
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-TCATCTTTAAGAC-CAA
* * * *
779583 GGTCGTTGACCGTGAATCAGCACATTG
62 TGTCGCTGGCCTTGAATCAGCACATTG
779610 ACATCCTTTT
Statistics
Matches: 685, Mismatches: 90, Indels: 33
0.85 0.11 0.04
Matches are distributed among these distances:
97 39 0.06
98 126 0.18
99 2 0.00
100 5 0.01
101 445 0.65
102 32 0.05
103 1 0.00
104 1 0.00
105 12 0.02
106 22 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (99 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGACCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:779015 original size:150 final size:149
Alignment explanation
Indices: 778717--779665 Score: 1023
Period size: 150 Copynumber: 6.3 Consensus size: 149
778707 GGCATCTTCT
* *
778717 TTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTT-ATCTTTAAAACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCAATGTCG
* * *
778781 CTGGCCATGAATCAGCACATTGGCACC--TTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCA
66 CTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCA
* *
778844 GCATATTGGCGCCTTTGTCATC
131 GCACATTGGCACC--T-TCATC
* * * * * *
778866 ATTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCAATGTCG
* * *
778931 CTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGATGGCCTTGAATC
66 CTGGCCTTGAATCAGCACATTGGCACCTTT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATC
* *
778996 AGCACATTAGCATCTTCATC
130 AGCACATTGGCACCTTCATC
* * * * * *
779016 TTTAAGTCCAATGTCG-TCGGCCTTAAATCAACACATTGGCATCTTCATCTTTAAGACCGATATC
1 TTTAAGTCCAATATCGCT-GGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCAATGTC
* * * *
779080 GCTGGCCTTGAATCAGCATATTGGCGCCTTCTTCATCTTTAAGACCAATGTCCCTGGCCTTGAAT
65 GCTGGCCTTGAATCAGCACATTGGCACCTT-TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAAT
*
779145 CAGCACATTGGAACCTTCATC
129 CAGCACATTGGCACCTTCATC
* * * *
779166 TTTAAGACCGATATCGCTGGCCTTGAATCAACAAATTGGCGCCTTCTTCATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGC-AC--CTTCATCTTTAAGACCAATG
* * * * *
779231 TCGCTGGCCTTGAATCAACACATTGGCATC-TTT-ATCTTTAAGTCGAATGTAGCTGGCCTTAAA
63 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
779294 TCAGCACATTGGCACCTTCATC
128 TCAGCACATTGGCACCTTCATC
* * **
779316 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCATTATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTC---ATCTTTAAGACCAATG
* * *
779381 TCGCTGGCCTTGAATCAGCATATT-G-ACATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
63 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
* *
779444 TTAGCAAATTGGCACCTTCATC
128 TCAGCACATTGGCACCTTCATC
* * * * *
779466 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGTCTTCGTCATCTTTAAAACCTAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGC-AC--CTTCATCTTTAAGACC-AAT
* * * * * * * * *
779531 GTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAAAGGTCGTTGACCGT
62 GTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTTCATCTTTAAGTC-CAATGTCGCTGGCCTT
*
779596 GAATCAGCACATTGACATCCTTTTTCTCATC
125 GAATCAGCACATTGGCA-CC----T-TCATC
** * * *
779627 TTTAAACCCAATATCGTTGGCCGTGAATCAACGTATTGG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGG
779666 TCCTTTTATC
Statistics
Matches: 679, Mismatches: 92, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
147 4 0.01
148 1 0.00
149 45 0.07
150 428 0.63
151 32 0.05
152 3 0.00
153 88 0.13
154 13 0.02
155 25 0.04
156 2 0.00
160 1 0.00
161 37 0.05
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (149 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCA
GCACATTGGCACCTTCATC
Found at i:779219 original size:251 final size:250
Alignment explanation
Indices: 778717--779559 Score: 1135
Period size: 251 Copynumber: 3.4 Consensus size: 250
778707 GGCATCTTCT
* * * *
778717 TTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTT-ATCTTTAAAACCAATGTCG
1 TTTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAAACCAATGTCG
* * * *
778781 CTGGCCATGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGC
66 CTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
* * *
778846 ATATTGGCGCCTT-TGTCATCATTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
131 ATATTGGCGCCTTCT-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCT
*
778910 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TGTCATC
195 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGC-CCTTCT-TCATC
* * * * **
778967 TTTAAGACCAATGTCGATGGCCTTGAATCAGCACATTAGCATCTTCATCTTTAAGTCCAATGTCG
1 TTTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAAACCAATGTCG
* * *
779032 -TCGGCCTTAAATCAACACATTGGCATCTTCATCTTTAAGACCGATATCGCTGGCCTTGAATCAG
66 CT-GGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAG
*
779096 CATATTGGCGCCTTCTTCATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGAACCT
130 CATATTGGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCT
* * *
779161 TCATCTTTAAGACCGATATCGCTGGCCTTGAATCAACAAATTGGCGCCTTCTTCATC
195 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGC-CCTTCTTCATC
* * ** * *
779218 TTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTTATCTTTAAGTCGAATGTAG
1 TTTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAAACCAATGTCG
779283 CTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
66 CTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
* * *
779348 ATATTGGTGCCTTCATT-ATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATT-GACATC
131 ATATTGGCGCCTTC-TTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGA-ACC
* * *
779411 TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCAAATTGGCAC--CTTCATC
194 TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCCCTTCTTCATC
* * * * *
779466 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGTCTTCGTCATCTTTAAAACCTAAT
1 TTTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCATC-T--TCATCTTTAAAACC-AAT
* *
779531 GTCGTTGGCCTTGAATCAGCACATTGGCA
62 GTCGCTGGCCTTAAATCAGCACATTGGCA
779560 TTCTTCTCAT
Statistics
Matches: 524, Mismatches: 58, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
248 44 0.08
249 1 0.00
250 41 0.08
251 404 0.77
252 34 0.06
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (250 bp):
TTTAAGACCAATATCGCTGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAAACCAATGTCG
CTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
ATATTGGCGCCTTCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGAACCTT
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAAATTGGCCCTTCTTCATC
Found at i:779655 original size:55 final size:52
Alignment explanation
Indices: 778883--779656 Score: 214
Period size: 49 Copynumber: 15.2 Consensus size: 52
778873 CCAATGTCGC
* * * * *
778883 TGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGTCC-AATATCGC
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * * * * *
778932 TGGCCTTGAATCAGCATATTGGCA-CCTTTGTCATCTTTAAGACC-AATGTCGA
1 TGGCCGTGAATCAGCACATTGACATTC-TTCTCATCTTTAA-ACCTAATATCGT
* * *
778984 TGGCCTTGAATCAGCACATT-AGCA-TC-T-TCATCTTTAAGTCC-AATGTCGT
1 TGGCCGTGAATCAGCACATTGA-CATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * * * * *
779033 CGGCCTTAAATCAACACATTGGCA-TC-T-TCATCTTTAAGACC-GATATCGC
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * ** * **
779082 TGGCCTTGAATCAGCATATTGGC-GCCTTCTTCATCTTTAAGACC-AATGTCCC
1 TGGCCGTGAATCAGCACATTGACATTCTTC-TCATCTTTAA-ACCTAATATCGT
* * * *
779134 TGGCCTTGAATCAGCACATTGGA-A--CCT-TCATCTTTAAGACC-GATATCGC
1 TGGCCGTGAATCAGCACATT-GACATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * * ** * *
779183 TGGCCTTGAATCAACAAATTGGC-GCCTTCTTCATCTTTAAGACC-AATGTCGC
1 TGGCCGTGAATCAGCACATTGACATTCTTC-TCATCTTTAA-ACCTAATATCGT
* * * ** * * * *
779235 TGGCCTTGAATCAACACATTGGCA-TCTT-T-ATCTTTAAGTCGAATGTAGC
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAAACCTAATATCGT
* * * * *
779284 TGGCCTTAAATCAGCACATTGGCA--CCT-TCATCTTTAAGACC-AATATCGC
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * * * * *
779333 TGGCCTTGAATCAGCATATTG--GTGCCTTCATTATCTTTAAGACC-AATGTCGC
1 TGGCCGTGAATCAGCACATTGACAT-TCTTC-TCATCTTTAA-ACCTAATATCGT
* * * * *
779385 TGGCCTTGAATCAGCATATTGACA-TC-T-TCATCTTTAAGTCC-AATGTCGC
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * * * * *
779434 TGGCCTTGAATTAGCAAATTGGCA--CCT-TCATCTTTAAGTCC-AATATCGC
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAA-ACCTAATATCGT
* * * * * *
779483 TGGCCTTGAATTAGCATATTGGC-GTCTTCGTCATCTTTAAAACCTAATGTCGT
1 TGGCCGTGAATCAGCACATTGACATTCTTC-TCATCTTT-AAACCTAATATCGT
* * * **
779536 TGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAA-AGGTCGT
1 TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAAACCTAATA--TCGT
* * *
779589 TGACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGT
1 TGGCCGTGAATCAGCACATTGACA---TTCTTCTCATCTTTAAACCTAATATCGT
779644 TGGCCGTGAATCA
1 TGGCCGTGAATCA
779657 ACGTATTGGT
Statistics
Matches: 599, Mismatches: 85, Indels: 76
0.79 0.11 0.10
Matches are distributed among these distances:
48 6 0.01
49 295 0.49
50 11 0.02
51 4 0.01
52 182 0.30
53 62 0.10
54 5 0.01
55 16 0.03
56 17 0.03
57 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
TGGCCGTGAATCAGCACATTGACATTCTTCTCATCTTTAAACCTAATATCGT
Found at i:780372 original size:19 final size:18
Alignment explanation
Indices: 780344--780406 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
780334 ATCGATACAA
*
780344 TGTATAGATACATAAGTGT
1 TGTATCGATACATAAGT-T
780363 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
780376 TGTATCGATAGATAAGTTT
1 TGTATCGATACATAAG-TT
780395 TGTATCGATACA
1 TGTATCGATACA
780407 ATGTATCGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 21 0.60
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:780413 original size:32 final size:32
Alignment explanation
Indices: 780329--780414 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
780319 ATTTCAACAA
*
780329 TTTGTATCGATACAATGTATAGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
* *
780361 GTTGTATCGATACAATGTATCGATAGATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
780393 TTTGTATCGATACAATGTATCG
1 TTTGTATCGATACAATGTATCG
780415 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (32 bp):
TTTGTATCGATACAATGTATCGATACATAAGT
Found at i:784784 original size:27 final size:28
Alignment explanation
Indices: 784726--784786 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
784716 CTTGACAAAT
*
784726 TGAAAAATGAGGTTGGAGTATCCCCTCA
1 TGAATAATGAGGTTGGAGTATCCCCTCA
* *
784754 -GAATAATGGGGTTGGAGTATCCCC-GA
1 TGAATAATGAGGTTGGAGTATCCCCTCA
784780 TGAATAA
1 TGAATAA
784787 ATTTTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (28 bp):
TGAATAATGAGGTTGGAGTATCCCCTCA
Found at i:786968 original size:20 final size:21
Alignment explanation
Indices: 786943--786985 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
786933 AAATTCCTAG
786943 ATGTATCGATACAATG-ATCA
1 ATGTATCGATACAATGTATCA
786963 ATGTATCGATACAATGTATCA
1 ATGTATCGATACAATGTATCA
786984 AT
1 AT
786986 ATGCAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATGTATCA
Found at i:787017 original size:13 final size:13
Alignment explanation
Indices: 786999--787024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
786989 CAAGGTAGCT
786999 TTGTATCGATACA
1 TTGTATCGATACA
787012 TTGTATCGATACA
1 TTGTATCGATACA
787025 AAACTTATGT
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):
TTGTATCGATACA
Found at i:787808 original size:28 final size:27
Alignment explanation
Indices: 787748--788117 Score: 255
Period size: 28 Copynumber: 13.1 Consensus size: 27
787738 GGGCTTTAGA
* * * *
787748 GAAAGTTGCCACCGACTTGTGTGGTCATT
1 GAAAGGTGCCACTGACTTATG-GG-CTTT
* *
787777 GAAAGGATGCCACTAACTTATGGACTTT
1 GAAAGG-TGCCACTGACTTATGGGCTTT
*
787805 GAAAAGATGCCACTGAC-T-TGGG-TATT
1 G-AAAGGTGCCACTGACTTATGGGCT-TT
* * *
787831 AAGAAGGTGCCACT-ATCTTGTGGGCTTC
1 GA-AAGGTGCCACTGA-CTTATGGGCTTT
*
787859 AAAATGGGTGCCACT-ATCTTATGGGCTTT
1 GAAA--GGTGCCACTGA-CTTATGGGCTTT
* * **
787888 GAGAAGGTGCTACTAACTCGTGGGCTTT
1 GA-AAGGTGCCACTGACTTATGGGCTTT
* *
787916 GAAAAGGCGCCACTGACTTGTGGGCTTT
1 G-AAAGGTGCCACTGACTTATGGGCTTT
*
787944 GAAAAGGTGCCACTGACTTGTGGGCTTT
1 G-AAAGGTGCCACTGACTTATGGGCTTT
** * *
787972 GAGAAAATGCTACTGACTTACGGGCTTT
1 GA-AAGGTGCCACTGACTTATGGGCTTT
* *
788000 GAAAAGGTGCCACTTACTTATGAGCTTT
1 G-AAAGGTGCCACTGACTTATGGGCTTT
* *
788028 AAAAAGGTGCCATTGACTTATGGGCTTT
1 -GAAAGGTGCCACTGACTTATGGGCTTT
* *
788056 GAAAGGGGTGCCACTGCCTTGTGGGCTTT
1 GAAA--GGTGCCACTGACTTATGGGCTTT
* *
788085 AAGAAGGTGCCTACTGACTTGTGGGCTTT
1 GA-AAGGTGCC-ACTGACTTATGGGCTTT
788114 GAAA
1 GAAA
788118 ACAAGTCGTA
Statistics
Matches: 276, Mismatches: 45, Indels: 41
0.76 0.12 0.11
Matches are distributed among these distances:
25 3 0.01
26 16 0.06
27 8 0.03
28 159 0.58
29 74 0.27
30 16 0.06
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (27 bp):
GAAAGGTGCCACTGACTTATGGGCTTT
Found at i:787951 original size:56 final size:56
Alignment explanation
Indices: 787735--788118 Score: 336
Period size: 56 Copynumber: 6.8 Consensus size: 56
787725 CACCAACTTG
* * * *
787735 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGTCATTG-AAAGGATGCCACTAACT
1 TGTGGGCTTT-GA-AAAGGTGCCACTGACTTATG-GG-CTTTGAAAAGG-TGCCACTAACT
* * * *
787795 TATGGACTTTGAAAAGATGCCACTGAC-T-TGGG-TATT-AAGAAGGTGCCACTATCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCT-TTGAA-AAGGTGCCACTAACT
* * *
787849 TGTGGGC-TTCAAAATGGGTGCCACT-ATCTTATGGGCTTTGAGAAGGTGCTACTAACT
1 TGTGGGCTTTGAAAA--GGTGCCACTGA-CTTATGGGCTTTGAAAAGGTGCCACTAACT
* * * *
787906 CGTGGGCTTTGAAAAGGCGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTAACT
* * * *
787962 TGTGGGCTTTGAGAAA-ATGCTACTGACTTACGGGCTTTGAAAAGGTGCCACTTACT
1 TGTGGGCTTTGA-AAAGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTAACT
* * * * * **
788018 TATGAGCTTTAAAAAGGTGCCATTGACTTATGGGCTTTGAAAGGGGTGCCACTGCCT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAA-AGGTGCCACTAACT
*
788075 TGTGGGCTTT-AAGAAGGTGCCTACTGACTTGTGGGCTTTGAAAA
1 TGTGGGCTTTGAA-AAGGTGCC-ACTGACTTATGGGCTTTGAAAA
788119 CAAGTCGTAT
Statistics
Matches: 265, Mismatches: 42, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
53 6 0.02
54 19 0.07
55 18 0.07
56 115 0.43
57 57 0.22
58 40 0.15
59 2 0.01
60 8 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTTTGAAAAGGTGCCACTAACT
Found at i:787971 original size:84 final size:84
Alignment explanation
Indices: 787735--788118 Score: 347
Period size: 84 Copynumber: 4.5 Consensus size: 84
787725 CACCAACTTG
* * * *
787735 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGTCATTG-AAAGGATGCCACTAACTTATG
1 TGTGGGCTTT-GA-AAAGGTGCCACTGACTTGTG-GG-CTTTGAAAAGG-TGCCACTGACTTATG
* * * *
787799 GACTTTGAAAAGATGCCACTGAC-
61 GGCTTTGAGAAGGTGCTACTGACT
*
787822 T-TGGG-TATT-AAGAAGGTGCCACT-ATCTTGTGGGC-TTCAAAATGGGTGCCACT-ATCTTAT
1 TGTGGGCT-TTGAA-AAGGTGCCACTGA-CTTGTGGGCTTTGAAAA--GGTGCCACTGA-CTTAT
*
787881 GGGCTTTGAGAAGGTGCTACTAACT
60 GGGCTTTGAGAAGGTGCTACTGACT
* * *
787906 CGTGGGCTTTGAAAAGGCGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTT
**
787971 TGAGAAAATGCTACTGACT
66 TGAGAAGGTGCTACTGACT
** * * * * *
787990 TACGGGCTTTGAAAAGGTGCCACTTACTTATGAGCTTTAAAAAGGTGCCATTGACTTATGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTT
* *
788055 TGA-AAGGGGTGCCACTGCCT
66 TGAGAA--GGTGCTACTGACT
788075 TGTGGGCTTT-AAGAAGGTGCCTACTGACTTGTGGGCTTTGAAAA
1 TGTGGGCTTTGAA-AAGGTGCC-ACTGACTTGTGGGCTTTGAAAA
788119 CAAGTCGTAT
Statistics
Matches: 244, Mismatches: 35, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
81 2 0.01
82 5 0.02
83 37 0.15
84 113 0.46
85 52 0.21
86 34 0.14
87 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (84 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTATGGGCTT
TGAGAAGGTGCTACTGACT
Found at i:791069 original size:28 final size:28
Alignment explanation
Indices: 791033--791439 Score: 435
Period size: 28 Copynumber: 14.5 Consensus size: 28
791023 CGACTTGTGC
* * *
791033 GGGCTTTGAAACGATGCCACTAACTTAT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
* * *
791061 GGACTTTGAAAAGATGCCACTAAGTTGT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
* *
791089 GGGCTTTGAGAAA-GTGCTACTCACTTGT
1 GGGCTTTGA-AAAGGTGCCACTAACTTGT
* *
791117 GGGCTTTGAAAAGGGTGCCACTGACTTAT
1 GGGCTTTGAAAA-GGTGCCACTAACTTGT
* *
791146 GGGCTTTGAGAAGGTGCCACTAACTTAT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
*
791174 GGGCTTTGAAAAGGTGCCACTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
* * *
791202 GGGATTTGAAAAGGCGCCACTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
* * *
791230 AGGG-TTCGAGAAGGTGCCACTGACTTGT
1 -GGGCTTTGAAAAGGTGCCACTAACTTGT
* * * * *
791258 GGGATTTAAAAAGGTACCACGAACTTAT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
* * *
791286 GGGCTTTGAAAATGTGCCATTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
*
791314 GGGCTTTG-AAAGGATGCCACTAACATGT
1 GGGCTTTGAAAAGG-TGCCACTAACTTGT
* *
791342 GGGCTTTGAGAAGGTGCCATTAACTTGT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
* *
791370 GGGGTTT-AAAAGGGATGCCACTAACTTAT
1 GGGCTTTGAAAA-GG-TGCCACTAACTTGT
*
791399 GGGCTTTGAAAAGGTGCCACTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTAACTTGT
791427 GGGCTTTGAAAAG
1 GGGCTTTGAAAAG
791440 AAGTCATATT
Statistics
Matches: 318, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
27 13 0.04
28 248 0.78
29 53 0.17
30 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (28 bp):
GGGCTTTGAAAAGGTGCCACTAACTTGT
Found at i:791516 original size:14 final size:13
Alignment explanation
Indices: 791462--791521 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
791452 CAAAAAAATT
*
791462 TTGAC-AAAGTTT
1 TTGACAAAAGTTC
*
791474 TTGATAAACA-TTC
1 TTGACAAA-AGTTC
791487 TTGACAAAAGTTC
1 TTGACAAAAGTTC
* *
791500 TTGACGATAATTTC
1 TTGAC-AAAAGTTC
791514 TTGACAAA
1 TTGACAAA
791522 TGGTGAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
12 5 0.13
13 21 0.55
14 12 0.32
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (13 bp):
TTGACAAAAGTTC
Found at i:793059 original size:19 final size:19
Alignment explanation
Indices: 793015--793106 Score: 80
Period size: 19 Copynumber: 4.7 Consensus size: 19
793005 CACACCCAGA
*
793015 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CTC
*
793035 TGTATCGATCCATGTTCTC
1 TGTATCGATACATGTTCTC
**
793054 TGTATCGATACATGGACAAT-
1 TGTATCGATACATGTTC--TC
* *
793074 TGTATCGATCCATGTTCAC
1 TGTATCGATACATGTTCTC
793093 TGTATCGATACATG
1 TGTATCGATACATG
793107 GACAATTGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
19 29 0.50
20 27 0.47
21 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCTC
Found at i:793062 original size:39 final size:40
Alignment explanation
Indices: 793034--793126 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 40
793024 ACATTATGCT
*
793034 TTGTATCGATCCATGTTCTCTGTATCGATACA-TGGACAA
1 TTGTATCGATCCATGTTCACTGTATCGATACATTGGACAA
793073 TTGTATCGATCCATGTTCACTGTATCGATACA-TGGACAA
1 TTGTATCGATCCATGTTCACTGTATCGATACATTGGACAA
*
793112 TTGTATCGATACATG
1 TTGTATCGATCCATG
793127 AAACTGGGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (40 bp):
TTGTATCGATCCATGTTCACTGTATCGATACATTGGACAA
Found at i:793118 original size:20 final size:20
Alignment explanation
Indices: 793054--793126 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
793044 CCATGTTCTC
793054 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
* ** *
793074 TGTATCGATCCATGTTC-AC
1 TGTATCGATACATGGACAAT
793093 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
793113 TGTATCGATACATG
1 TGTATCGATACATG
793127 AAACTGGGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:795328 original size:13 final size:13
Alignment explanation
Indices: 795310--795334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
795300 AAATATTGTC
795310 AAACTTGAAAAAG
1 AAACTTGAAAAAG
795323 AAACTTGAAAAA
1 AAACTTGAAAAA
795335 ATTTAGAGAA
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:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (13 bp):
AAACTTGAAAAAG
Found at i:799373 original size:13 final size:13
Alignment explanation
Indices: 799355--799381 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
799345 ACAATATTCC
799355 TTGTATCGATACA
1 TTGTATCGATACA
799368 TTGTATCGATACA
1 TTGTATCGATACA
799381 T
1 T
799382 GGGTTATTAT
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):
TTGTATCGATACA
Found at i:802107 original size:20 final size:20
Alignment explanation
Indices: 802082--802238 Score: 96
Period size: 20 Copynumber: 7.8 Consensus size: 20
802072 TTTTCACAAT
802082 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
802102 TTGTATCGATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
* * *
802130 GATGTATCGATACATTATGCA
1 -TTGTATCGATACATTGTTCA
* * *
802151 TTATATCGATGCATTGCTCA
1 TTGTATCGATACATTGTTCA
802171 TTGTATCGATACA----T-A
1 TTGTATCGATACATTGTTCA
*
802186 -T-TATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
802204 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
802224 ATGTATCGATACATT
1 TTGTATCGATACATT
802239 CAGGCATTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 34
0.69 0.08 0.22
Matches are distributed among these distances:
13 10 0.09
14 1 0.01
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 2 0.02
20 66 0.62
21 3 0.03
22 1 0.01
24 2 0.02
25 2 0.02
27 1 0.01
28 3 0.03
29 12 0.11
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:802195 original size:53 final size:53
Alignment explanation
Indices: 802134--802237 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
802124 TACCCAGATG
* *
802134 TATCGATACATT-ATGCATTATATCGATGCATTGCT-CATTGTATCGATACATAT
1 TATCGATACATTGAT-CATTATATCGATACATT-CTACAATGTATCGATACATAT
* * *
802187 TATCGATACATTGCTCATTGTATCGATACATTTTACAATGTATCGATACAT
1 TATCGATACATTGATCATTATATCGATACATTCTACAATGTATCGATACAT
802238 TCAGGCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
52 1 0.02
53 42 0.95
54 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (53 bp):
TATCGATACATTGATCATTATATCGATACATTCTACAATGTATCGATACATAT
Found at i:802199 original size:33 final size:33
Alignment explanation
Indices: 802154--802217 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
802144 TTATGCATTA
*
802154 TATCGATGCATTGCTCATTGTATCGATACATAT
1 TATCGATACATTGCTCATTGTATCGATACATAT
802187 TATCGATACATTGCTCATTGTATCGATACAT
1 TATCGATACATTGCTCATTGTATCGATACAT
802218 TTTACAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (33 bp):
TATCGATACATTGCTCATTGTATCGATACATAT
Found at i:804659 original size:28 final size:28
Alignment explanation
Indices: 804626--804689 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
804616 TTCATAATCG
* *
804626 GGGATACTCTAACCCCGTTA-TTTCATC
1 GGGATACTCAAACCCCATTATTTTCATC
804653 GGTGATACTCAAACCCCATTATTTTCA-C
1 GG-GATACTCAAACCCCATTATTTTCATC
804681 GGGATACTC
1 GGGATACTC
804690 CAATCCTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 9 0.27
28 19 0.58
29 5 0.15
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (28 bp):
GGGATACTCAAACCCCATTATTTTCATC
Found at i:804766 original size:106 final size:106
Alignment explanation
Indices: 804575--804767 Score: 264
Period size: 106 Copynumber: 1.8 Consensus size: 106
804565 TTCACAATCG
* * *
804575 GGGATACTCTAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCTAACC
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGAGGATACTCCAACC
* *
804640 CCGTTATTTCATCGGTGATACTCAAACCCCATTATTTTCAC
66 CCGTTATTTCATAGGAGATACTCAAACCCCATTATTTTCAC
* *
804681 GGGATACTCCAA-TCCTGATTTTATTTTCAAAACATCGA-TTTTCTATAATCGAGGATACTCCAA
1 GGGATACTCCAACTCC-GATTTTATTTCCAAAACATCAATTTTTC-ATAATCGAGGATACTCCAA
* **
804744 CCTCGTTATTTTTTAGGAGATACT
64 CCCCGTTATTTCATAGGAGATACT
804768 GTAACCACGG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
105 8 0.11
106 67 0.89
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (106 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGAGGATACTCCAACC
CCGTTATTTCATAGGAGATACTCAAACCCCATTATTTTCAC
Found at i:804959 original size:79 final size:78
Alignment explanation
Indices: 804650--804977 Score: 302
Period size: 79 Copynumber: 4.2 Consensus size: 78
804640 CCGTTATTTC
* * * * * *
804650 ATCGGTGATACTCAAACCCCATTATTTTCACGGGATACTCCAATCCTGATTTTATTT-TCAAAAC
1 ATCGGGGATACTCCAACCCCATTATTTTGAGGGGATACTCCAACCCCGATTTTATTTCT-AAAAC
804714 ATCGATTTTCTATA
65 ATCGATTTTCTATA
* * * * * ** * ** * *
804728 ATCGAGGATACTCCAACCTCGTTATTTTTTAGGAGATACTGTAACCACGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCATTA-TTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
* *
804793 ATTGATTTT-TCACA
65 ATCGATTTTCT-ATA
* * * * * *
804807 ATCGGGGATACTCTAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTTGAAAT
1 ATCGGGGATACTCCAACCCCATTATTTT-GAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
804872 ATCGATTTTCTATA
65 ATCGATTTTCTATA
* * *
804886 ATCAGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCCGATTTTACTTCTAAAAC
1 ATCGGGGATACTCCAACCCCATTATTT-TGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
* *
804951 ACCAATTTTCGT-TA
65 ATCGATTTTC-TATA
804965 ATCGGGGATACTC
1 ATCGGGGATACTC
804978 TAGCCCTGTT
Statistics
Matches: 196, Mismatches: 47, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
78 24 0.12
79 169 0.86
80 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCATTATTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA
TCGATTTTCTATA
Found at i:804959 original size:158 final size:157
Alignment explanation
Indices: 804650--804990 Score: 373
Period size: 158 Copynumber: 2.2 Consensus size: 157
804640 CCGTTATTTC
* * * * * *
804650 ATCGGTGATACTCAAACCCCATTATTTTCACGGGATACTCCAATCCTGATTTTATTTTCAAAACA
1 ATCGGGGATACTCTAACCCCGTTATTTTCAAGGGATACTCCAACCCCGATTTTATTTTCAAAACA
* * * ** *
804715 TCGATTTTCTATAATCGAGGATACTCCAACCTCGTTATTTTTTAGGAGATACTGTAACCACGGCT
66 TCGATTTTCTATAATCGAGGATACTCCAACCTCATTATTTCTGAGGAGATACTCCAACCACGACT
* * ** *
804780 TTATTTCCAAAATATTGATTTTTC-ACA
131 TTACTTCCAAAACA-CCAATTTTCGACA
** *
804807 ATCGGGGATACTCTAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTTGAAAT
1 ATCGGGGATACTCTAACCCCGTTATTTTC-AAGGGATACTCCAACCCCGATTTTATTTTCAAAAC
* *
804872 ATCGATTTTCTATAATC-AGGGATACTCCAACC-CTATTATTTCTGAGGGGATACTCCAACCCCG
65 ATCGATTTTCTATAATCGA-GGATACTCCAACCTC-ATTATTTCTGAGGAGATACTCCAACCACG
* * **
804935 ATTTTACTTCTAAAACACCAATTTTCGTTA
128 ACTTTACTTCCAAAACACCAATTTTCGACA
* *
804965 ATCGGGGATACTCTAGCCCTGTTATT
1 ATCGGGGATACTCTAACCCCGTTATT
804991 ATCTCCAAAA
Statistics
Matches: 152, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
157 34 0.22
158 118 0.78
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (157 bp):
ATCGGGGATACTCTAACCCCGTTATTTTCAAGGGATACTCCAACCCCGATTTTATTTTCAAAACA
TCGATTTTCTATAATCGAGGATACTCCAACCTCATTATTTCTGAGGAGATACTCCAACCACGACT
TTACTTCCAAAACACCAATTTTCGACA
Found at i:806276 original size:13 final size:13
Alignment explanation
Indices: 806258--806283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
806248 CAATTTTTTG
806258 TGTATCGATACAT
1 TGTATCGATACAT
806271 TGTATCGATACAT
1 TGTATCGATACAT
806284 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:806370 original size:20 final size:20
Alignment explanation
Indices: 806345--806417 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
806335 TCTTTTTTTT
806345 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
806365 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
806386 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
806406 ATGTATCGATAC
1 ATGTATCGATAC
806418 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:806396 original size:41 final size:42
Alignment explanation
Indices: 806322--806417 Score: 167
Period size: 41 Copynumber: 2.3 Consensus size: 42
806312 CTGCCAAGAA
*
806322 ATGTATCGATACATCTTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTTCATGTATCGATACATTGCAAC
806365 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
806406 ATGTATCGATAC
1 ATGTATCGATAC
806418 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
41 37 0.71
43 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:807033 original size:16 final size:16
Alignment explanation
Indices: 807002--807047 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
806992 CTCTCCTTTG
807002 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
807020 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
807036 TCTCCCCCTTAA
1 TCTCCCCCTTAA
807048 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:808871 original size:13 final size:13
Alignment explanation
Indices: 808853--808891 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
808843 ATAATCACCC
*
808853 TGTATCGATACAG
1 TGTATCGATACAA
808866 TGTATCGATACAA
1 TGTATCGATACAA
808879 TGTATCGATACAA
1 TGTATCGATACAA
808892 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:808902 original size:20 final size:20
Alignment explanation
Indices: 808877--808930 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
808867 GTATCGATAC
808877 AATGTATCGATACA-AAGAAA
1 AATGTATCGATACACAA-AAA
808897 AATGTATCGATACACAAAAA
1 AATGTATCGATACACAAAAA
*
808917 CATGTATCGATACA
1 AATGTATCGATACA
808931 TTTTGGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (20 bp):
AATGTATCGATACACAAAAA
Found at i:810965 original size:15 final size:15
Alignment explanation
Indices: 810945--810975 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
810935 ATTTCGTTTG
*
810945 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
810960 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
810975 G
1 G
810976 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:815055 original size:13 final size:13
Alignment explanation
Indices: 815037--815062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
815027 CAATTTTTTG
815037 TGTATCGATACAT
1 TGTATCGATACAT
815050 TGTATCGATACAT
1 TGTATCGATACAT
815063 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:815149 original size:20 final size:20
Alignment explanation
Indices: 815124--815196 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
815114 TCTTTTTTTT
815124 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
815144 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
815165 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
815185 ATGTATCGATAC
1 ATGTATCGATAC
815197 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:815175 original size:41 final size:42
Alignment explanation
Indices: 815101--815196 Score: 167
Period size: 41 Copynumber: 2.3 Consensus size: 42
815091 CTGCCAAGAA
*
815101 ATGTATCGATACATCTTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATC-TTTTTTCATGTATCGATACATTGCAAC
815144 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
815185 ATGTATCGATAC
1 ATGTATCGATAC
815197 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
41 37 0.71
43 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:821205 original size:55 final size:55
Alignment explanation
Indices: 821114--821218 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
821104 GTCTTTTTCT
* * ** *
821114 TTTTAAAGCCCACATAAGTTAGTAGCATTTTTTAGTCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTAGTAGCACTTCCTAGTCCTCAAAAAGCAGGACACC
* *
821169 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGG
1 TTTTAAAGCCCACACAAGTTAGTAGCACTTCCTAGTCCTCAAAAAGCAGG
821219 GCGCTCTCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTAGTAGCACTTCCTAGTCCTCAAAAAGCAGGACACC
Found at i:821366 original size:156 final size:152
Alignment explanation
Indices: 821082--821367 Score: 371
Period size: 156 Copynumber: 1.8 Consensus size: 152
821072 CTTTTGGCTT
* *
821082 TTTAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTTTAAAGCCCACATAAGTTAGTAGCATTTTTT
1 TTTAGTCCTCAAAGAGCAGGACGTC----TCTTTTTAAAGCCCACATAAGTTAATAGCATTTTCT
*
821147 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
62 AGTCCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
821212 AAGCAGGGCGCTCTCTCCTTTCGCCC
127 AAGCAGGGCGCTCTCTCCTTTCGCCC
*
821238 TTTAGTCCTCAAAGAGCAGGACG-C-C-TTTTAAAGCCCACATAAGTTAATGGCACTTTTCTAGT
1 TTTAGTCCTCAAAGAGCAGGACGTCTCTTTTTAAAGCCCACATAAGTTAATAGCA-TTTTCTAGT
* * * **
821300 CCTTAAAGAGCAAGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTC
65 CCTCAAAGAGCAAGACACC---T--TTT-AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
821365 AAA
124 AAA
821368 GAACAGGACG
Statistics
Matches: 114, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
149 25 0.22
150 25 0.22
153 1 0.01
155 4 0.04
156 59 0.52
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (152 bp):
TTTAGTCCTCAAAGAGCAGGACGTCTCTTTTTAAAGCCCACATAAGTTAATAGCATTTTCTAGTC
CTCAAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGC
AGGGCGCTCTCTCCTTTCGCCC
Found at i:821898 original size:61 final size:61
Alignment explanation
Indices: 821238--822592 Score: 1298
Period size: 61 Copynumber: 22.6 Consensus size: 61
821228 CCTTTCGCCC
* **
821238 TTTAGTCCTCAAAGAGCAGGACG-C----CTTTT-AAAGCCCACATAAGTTAATGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
821293 TTCTAGTCCTTAAAGAGCAAGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
821355 TTTAGTCCTCAAAGAACAGGACG-C----CTTTT-AAAGCCCACATAAGTTGGTGGTACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*** * **
821410 CCCAGTCCTCAAAGAGCAGGACGTCC-TTT-TTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
821470 TTTAGTCCTCAAAGAGCAGGACGTCTTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCATTT
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
821532 TTCTAGTCCTCAAAGAGCAGGATGTCTTTTCCTTTCAAAGCCCACATAAGTTGGTGGGCACTT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGT-GGCACTT
*
821595 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
821657 TTTAGTCCTCAAAGAGCAGGATGTCC---TC--TT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
821713 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
821774 TTTAGTCCTCAAAGAGCAGAACGCC---TC--TT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*** * * *
821829 CCCAGTCCTCAAAGAGCAGGATGTCCTTTT-TTTTCAAAGCCCACACGAGTTGGTGGCACTC
1 TTTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * * * *
821890 TTTAGTCCTCAAAGAGTAGGACGTCTTTTTTTTCTTTTTAAAGCCGACACAAGTTGGTCGCACCT
1 TTTAGTCCTCAAAGAGCAGGACG-C---CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
** * * * * * *
821955 TCCAATCCTCAAAGAGCAAGACATCTTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCT
1 TTTAGTCCTCAAAGAGCAGGAC-GCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
* * *
822018 TCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTC-AAGCCCACACAAGTTGGTGGCACAT
1 TTTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
822079 TTCAGTCCTCAAAGAGCAAGACTGCCTTTTCCTTTTC-AAGCCCACACGAGTTGGCGGCACAT
1 TTTAGTCCTCAAAGAGCAGGAC-GCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
822141 TTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
822201 TTCCAGTCCTTAAAGAGTAGGACG-C----C-TTTCAAAGCCCATATAAGTTGGTGGCACTTT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-TT
*
822258 TTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* *
822318 TTCTAGTCCTCAAAGAGCAAGACG-C----C-TTTCAAAGCTCACACAAGTTGGTGGCA-TT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * * * *** *
822373 TTCCAGTCCTTAAAGAGTAGGATG-CTTTCTCCTTTT-AAAGACCACTTGAGTTGGTGGCACCT
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTT-T-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
** * * * * *
822435 TCCAGTCTTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCTCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
** ** *
822496 TCCAGTCCTCAAAGAGCATAACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* *
822557 TTTAGTCCTCAAATAGCAGGATGCCTTTTCCTTTTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTC
822593 TCCTTTGTCC
Statistics
Matches: 1091, Mismatches: 142, Indels: 127
0.80 0.10 0.09
Matches are distributed among these distances:
54 29 0.03
55 133 0.12
56 71 0.07
57 31 0.03
59 9 0.01
60 81 0.07
61 328 0.30
62 251 0.23
63 111 0.10
64 4 0.00
65 43 0.04
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:822327 original size:545 final size:537
Alignment explanation
Indices: 821238--822592 Score: 1706
Period size: 545 Copynumber: 2.5 Consensus size: 537
821228 CCTTTCGCCC
* * ** *
821238 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTAATGGCACTTTTCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGAACGCC-TTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCT
* * * * * *
821303 TAAAGAGCAAGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAA
64 TAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTCAAA
* * *
821368 GAACAGGACGC----C-TTTTAAAGCCCACATAAGTTGGTGGTA-CTTCCCAGTCCTCAAAGAGC
129 GAGCAGGACGCTTTTCTTTTTAAAG-CCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGC
* *
821427 AGGACGTCCTTT-TTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGA
192 AAGAC-TCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGA
* * * * ** *
821491 CGTCTTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCAGGATG
256 C-ACCTTTTTCTTTTCAAGCCCACACAAGTTGGTGGCACATTTCTAGTCCTCAAAGAGCAAGATG
* * * *
821556 TCTTTTCCTTTCAAAGCCCACATAAGTTGGTGGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCC
320 CCTTTTCCTTTCAAAGCCCACACAAGTTGGTCGGCACATTTCTAGTCCTCAAAGAGCAGGACGCC
** *
821621 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATGTCCTCT
385 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCCTCT
*
821686 TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAA
450 TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAA
821751 AGCCCACACAAGTTGGTGGCATT
515 AGCCCACACAAGTTGGTGGCATT
* *
821774 TTTAGTCCTCAAAGAGCAGAACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGAACGCCT-TTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTT
821839 AAAGAGCAGGATGTCCTTTT-TTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTCAAA
65 AAAGAGCAGGATG-CCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTCAAA
* * *
821903 GAGTAGGACGTCTTTTTTTTCTTTTTAAAGCCGACACAAGTTGGTCGCACCTTCCAATCCTCAAA
129 GAGCAGGACG-C----TTTTCTTTTTAAAGCC-ACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* *
821968 GAGCAAGACATCTTTTTCTTTTAAAAGCCCACACAAGTTGGTGGCACCCTTCTAGTCCTCAAAGA
188 GAGCAAGAC-TC-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT-TAGTCCTCAAAGA
822033 GCAGGACACCTTTTTCTTTTCAAGCCCACACAAGTTGGTGGCACATTTC-AGTCCTCAAAGAGCA
250 GCAGGACACCTTTTTCTTTTCAAGCCCACACAAGTTGGTGGCACATTTCTAGTCCTCAAAGAGCA
* *
822097 AGACTGCCTTTTCCTTTTC-AAGCCCACACGAGTTGG-CGGCACATTTC-AGTCCTCAAAGAGTA
315 AGA-TGCCTTTTCC-TTTCAAAGCCCACACAAGTTGGTCGGCACATTTCTAGTCCTCAAAGAGCA
* * *
822159 GGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGTAGGA
378 GGACGCCTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
* * *
822223 CG-CCT-TTCAAAGCCCATATAAGTTGGTGGCACTTTTTTAGTCCTCAAAGAGCAAGACGCCTTT
442 CGTCCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTT
*
822286 TCCTTTTAAAGCCCACACAAGTTGGTGGCATT
506 TCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* *
822318 TTCTAGTCCTCAAAGAGCA-AGACGCCTTTCAAAGCTCACACAAGTTGGTGGCATTTTCCAGTCC
1 TT-TAGTCCTCAAAGAGCAGA-ACGCCTTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCC
* * ** * *
822382 TTAAAGAGTAGGATG-CTTTCTCCTTTT-AAAGACCACTTGAGTTGGTGGCAC-CTTCCAGTCTT
63 TTAAAGAGCAGGATGCCTTT-T-CTTTTCAAAGCCCACACGAGTTGGTGGCACTCTT-TAGTCCT
* **
822444 CAAAGAGCAGGATGCTTTCTCTTTGCAAAGCTCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
125 CAAAGAGCAGGACGCTTT-TCTTTTTAAAGC-CACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* ** *
822509 GAGCATA-ACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAATAG
188 GAGCA-AGAC-TCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAG
** *
822573 CAGGATGCCTTTTCCTTTTC
251 CAGGACACCTTTTTCTTTTC
822593 TCCTTTGTCC
Statistics
Matches: 714, Mismatches: 74, Indels: 59
0.84 0.09 0.07
Matches are distributed among these distances:
535 69 0.10
536 54 0.08
539 30 0.04
540 37 0.05
541 48 0.07
542 2 0.00
543 6 0.01
544 98 0.14
545 214 0.30
546 41 0.06
547 91 0.13
548 24 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (537 bp):
TTTAGTCCTCAAAGAGCAGAACGCCTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTTA
AAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTCAAAGA
GCAGGACGCTTTTCTTTTTAAAGCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGA
CTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCT
TTTTCTTTTCAAGCCCACACAAGTTGGTGGCACATTTCTAGTCCTCAAAGAGCAAGATGCCTTTT
CCTTTCAAAGCCCACACAAGTTGGTCGGCACATTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT
TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCCTCTTAAAGC
CCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAGCCCA
CACAAGTTGGTGGCATT
Found at i:822680 original size:45 final size:44
Alignment explanation
Indices: 822587--822742 Score: 146
Period size: 45 Copynumber: 3.6 Consensus size: 44
822577 ATGCCTTTTC
* *
822587 CTTTTCTCCTTTGTCCTCAAAGAGCAGGAC-ATACTTCA-TTCCCTT
1 CTTTTC-CCTTTGTCCTCAAAGAGCAGGACGA-ACTTTATTTTCC-T
822632 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGAACTTTATTTTCCT
1 CTTTTCCC-TTTGTCCTCAAAGAGCAGGACGAACTTTATTTTCCT
* * * * *
822677 C-TTT-CTTTTATCCTCAAAGAGCAAGACGCA-TTTCGTTTTCCT
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGAACTTT-ATTTTCCT
822719 -TTTTCCCTTTGTCCTCGAAA-AGCA
1 CTTTTCCCTTTGTCCTC-AAAGAGCA
822743 AGACATACTC
Statistics
Matches: 95, Mismatches: 9, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
41 3 0.03
42 31 0.33
43 14 0.15
44 8 0.08
45 34 0.36
46 5 0.05
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (44 bp):
CTTTTCCCTTTGTCCTCAAAGAGCAGGACGAACTTTATTTTCCT
Found at i:822743 original size:43 final size:43
Alignment explanation
Indices: 822582--822746 Score: 144
Period size: 42 Copynumber: 3.8 Consensus size: 43
822572 GCAGGATGCC
* *
822582 TTTTCC-TTTTCTCCTTTGTCCTCAAAGAGCAGGAC-ATACTTCA
1 TTTTCCTTTTTC-CCTTTGTCCTCAAAGAGCAAGACGA-ACTTTA
* *
822625 -TTCCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGACGAACTTTA
1 TTTTCC-T-TTTTCCC-TTTGTCCTCAAAGAGCAAGACGAACTTTA
* * * * *
822670 TTTTCCTCTTT-CTTTTATCCTCAAAGAGCAAGACGCA-TTTCG
1 TTTTCCTTTTTCCCTTTGTCCTCAAAGAGCAAGACGAACTTT-A
822712 TTTTCCTTTTTCCCTTTGTCCTCGAAA-AGCAAGAC
1 TTTTCCTTTTTCCCTTTGTCCTC-AAAGAGCAAGAC
822747 ATACTCTTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
41 3 0.03
42 35 0.35
43 18 0.18
44 8 0.08
45 32 0.32
46 5 0.05
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (43 bp):
TTTTCCTTTTTCCCTTTGTCCTCAAAGAGCAAGACGAACTTTA
Found at i:822859 original size:77 final size:77
Alignment explanation
Indices: 822707--822861 Score: 185
Period size: 77 Copynumber: 2.0 Consensus size: 77
822697 GCAAGACGCA
*
822707 TTTCGTTTTCCTTTTTCCCTTTGTCCTCGAAAAGCAAGACATACTCTTTTCCACTTTGTCCTCAA
1 TTTCCTTTTCCTTTTTCCCTTTGTCCTCGAAAAGCAAGACATACTCTTTTCCACTTTGTCCTCAA
822772 GAAACAGGACAC
66 GAAACAGGACAC
* * *
822784 TTTCCTTTT-CTTTTTTCCTTTGTCCTC-AAGGAGCAAGACCTATTTCTCTTTT-C-CTTTGTCC
1 TTTCCTTTTCCTTTTTCCCTTTGTCCTCGAA-AAGCAAGA-C-A-TACTCTTTTCCACTTTGTCC
*
822845 TCAA-AAAGCGGGACAC
62 TCAAGAAA-CAGGACAC
822861 T
1 T
822862 CTTTCCATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
75 2 0.03
76 27 0.40
77 29 0.43
78 2 0.03
79 8 0.12
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (77 bp):
TTTCCTTTTCCTTTTTCCCTTTGTCCTCGAAAAGCAAGACATACTCTTTTCCACTTTGTCCTCAA
GAAACAGGACAC
Found at i:822875 original size:77 final size:76
Alignment explanation
Indices: 822717--822878 Score: 174
Period size: 76 Copynumber: 2.1 Consensus size: 76
822707 TTTCGTTTTC
822717 CTTTTTCCCTTTGTCCTCGAAAAGCAAGACATACTCTTTTCCACTTTGTCCTCAAGAAACAGGAC
1 CTTTTTCCCTTTGTCCTCGAAAAGCAAGACATACTCTTTTCCACTTTGTCCTCAAGAAACAGGAC
*
822782 ACTTTCCTTTT
66 ACTTTCCTATT
* * *
822793 CTTTTTTCCTTTGTCCTC-AAGGAGCAAGACCTATTTCTCTTTT-C-CTTTGTCCTCAA-AAAGC
1 CTTTTTCCCTTTGTCCTCGAA-AAGCAAGA-C-A-TACTCTTTTCCACTTTGTCCTCAAGAAA-C
*
822854 GGGACACTCTTTCC-ATT
61 AGGACA--CTTTCCTATT
822871 -TTTTTCCC
1 CTTTTTCCC
822879 CTTCTAAAGT
Statistics
Matches: 73, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
75 2 0.03
76 27 0.37
77 26 0.36
78 4 0.05
79 14 0.19
ACGTcount: A:0.20, C:0.29, G:0.11, T:0.40
Consensus pattern (76 bp):
CTTTTTCCCTTTGTCCTCGAAAAGCAAGACATACTCTTTTCCACTTTGTCCTCAAGAAACAGGAC
ACTTTCCTATT
Found at i:823410 original size:13 final size:13
Alignment explanation
Indices: 823394--823423 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
823384 ATACATTGTT
823394 CATTGTATCGATA
1 CATTGTATCGATA
823407 CATTGTATCGATA
1 CATTGTATCGATA
823420 CATT
1 CATT
823424 CTGGGTTTAC
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:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:823464 original size:20 final size:20
Alignment explanation
Indices: 823439--823544 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
823429 TTTACCCAGA
*
823439 TGTATCGATACATT-TTACAT
1 TGTATCGATACATTGCT-CAT
823459 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
823479 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
*
823499 TGCATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
823512 TGTATCGATACATTGCTCA-
1 TGTATCGATACATTGCTCAT
823531 TGTATCGATACATT
1 TGTATCGATACATT
823545 TTATAATGTA
Statistics
Matches: 75, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
18 1 0.01
19 14 0.19
20 47 0.63
21 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:823512 original size:13 final size:13
Alignment explanation
Indices: 823496--823527 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
823486 ATACATTGCT
823496 CATTGCATCGATA
1 CATTGCATCGATA
*
823509 CATTGTATCGATA
1 CATTGCATCGATA
823522 CATTGC
1 CATTGC
823528 TCATGTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (13 bp):
CATTGCATCGATA
Found at i:823513 original size:33 final size:32
Alignment explanation
Indices: 823476--823544 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
823466 ATACATTGCT
823476 CATTGTATCGATACATTGCTCATTGCATCGATA
1 CATTGTATCGATACATTGCTCA-TGCATCGATA
*
823509 CATTGTATCGATACATTGCTCATGTATCGATA
1 CATTGTATCGATACATTGCTCATGCATCGATA
823541 CATT
1 CATT
823545 TTATAATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 13 0.37
33 22 0.63
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (32 bp):
CATTGTATCGATACATTGCTCATGCATCGATA
Found at i:823555 original size:20 final size:20
Alignment explanation
Indices: 823512--823564 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
823502 ATCGATACAT
* *
823512 TGTATCGATACA-TTGCTCA
1 TGTATCGATACATTTGATAA
*
823531 TGTATCGATACATTTTATAA
1 TGTATCGATACATTTGATAA
823551 TGTATCGATACATT
1 TGTATCGATACATT
823565 CAGGCATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTGATAA
Found at i:826037 original size:79 final size:76
Alignment explanation
Indices: 825902--826296 Score: 341
Period size: 79 Copynumber: 5.0 Consensus size: 76
825892 TTCACAATCG
* * *
825902 GGGATACTCTAACTCTGATTTTATTTTCAAAACATCAATTTTTCATAATCGAGGATACTCTAACC
1 GGGATACTCCAAC-CCGATTTTATTTTCAAAACATCGA-TTTTCATAATCG-GGATACTCTAACC
825967 CCGTTATTTCATCGA
63 CCGTTATTTC-TCGA
* *
825982 -GGATACTCCAATCCCGATTTTATTTTTAAAACATCGATTTTCAATAATCAGGGATACTCCAACC
1 GGGATACTCCAA-CCCGATTTTATTTTCAAAACATCGATTTTC-ATAATC-GGGATACTCTAACC
826046 CCGTTATTTCT-GA
63 CCGTTATTTCTCGA
* * * * * *
826059 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTTTCACAATCGGGGATACTCTAAC
1 -GGGATACTCCAACCCGA-TTTTATTTTCAAAACATCGA-TTTTCATAATC-GGGATACTCTAAC
*
826124 CTCAGTTATTT-TCGA
62 C-CCGTTATTTCTCGA
** * *
826139 GGGAATACTCCAACCCTGATTTTATTTTTGAAATATCAATTTTCTATAATCAGGGATACT-TCAA
1 GGG-ATACTCCAACCC-GATTTTATTTTCAAAACATCGATTTTC-ATAATC-GGGATACTCT-AA
** *
826203 CCCTATTATTTC-CAA
61 CCCCGTTATTTCTCGA
* * * * *
826218 GGGGATACTCCAACCCCGATTTTACTTCCAAAACACCGATTTTCCATAATCGAGGATACTCCAGC
1 -GGGATACTCCAA-CCCGATTTTATTTTCAAAACATCGATTTT-CATAATCG-GGATACTCTAAC
826283 CCCGTTATTATCTC
62 CCCGTTATT-TCTC
826297 CAAAATATTA
Statistics
Matches: 256, Mismatches: 38, Indels: 41
0.76 0.11 0.12
Matches are distributed among these distances:
77 2 0.01
78 11 0.04
79 172 0.67
80 69 0.27
81 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (76 bp):
GGGATACTCCAACCCGATTTTATTTTCAAAACATCGATTTTCATAATCGGGATACTCTAACCCCG
TTATTTCTCGA
Found at i:826197 original size:159 final size:157
Alignment explanation
Indices: 825901--826278 Score: 465
Period size: 159 Copynumber: 2.4 Consensus size: 157
825891 TTTCACAATC
* * * * * *
825901 GGGGATACTCTAACTCTGATTTTATTTTCAAAACATCAATTTTTCATAATCGAGGATACTCTAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATCGATTTTTCATAATCGAGGATACTCTAAC
* *
825966 CCCGTTATTTCATCGAGGATACTCCAATCCCGATTTTATTTTTAAAACATCGATTTTCAATAATC
66 CCAGTTATTT-ATCGAGGATACTCCAATCCCGATTTTATTTTTAAAACATCAATTTTCAATAATC
* **
826031 AGGGATACTCCAACCCCGTTATTTCTGA
130 AGGGATACTCCAACCCCATTATTTCCAA
* * * *
826059 GGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTGATTTTTCACAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGA-CTTTATTTCCAAAACATCGATTTTTCATAATCGAGGATACTCTAA
* * *
826123 CCTCAGTTATTT-TCGAGGGAATACTCCAA-CCCTGATTTTATTTTTGAAATATCAATTTTCTAT
65 CC-CAGTTATTTATCGA-GG-ATACTCCAATCCC-GATTTTATTTTTAAAACATCAATTTTCAAT
* *
826186 AATCAGGGATACTTCAACCCTATTATTTCCAA
126 AATCAGGGATACTCCAACCCCATTATTTCCAA
* * * *
826218 GGGGATACTCCAACCCCGATTTTACTTCCAAAACACCGATTTTCCATAATCGAGGATACTC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATCGATTTTTCATAATCGAGGATACTC
826279 CAGCCCCGTT
Statistics
Matches: 186, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
157 5 0.03
158 59 0.32
159 121 0.65
160 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (157 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACATCGATTTTTCATAATCGAGGATACTCTAAC
CCAGTTATTTATCGAGGATACTCCAATCCCGATTTTATTTTTAAAACATCAATTTTCAATAATCA
GGGATACTCCAACCCCATTATTTCCAA
Found at i:827403 original size:32 final size:33
Alignment explanation
Indices: 827343--827404 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
827333 CACCCAGATG
*
827343 TATCGATACATTATGCTTTGTATCGATACATTT
1 TATCGATACATTATGCATTGTATCGATACATTT
*
827376 TATCGATACATGT-T-CATTGTATTGATACA
1 TATCGATACAT-TATGCATTGTATCGATACA
827405 CGGACAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.50
33 12 0.46
34 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTT
Found at i:827489 original size:13 final size:13
Alignment explanation
Indices: 827471--827523 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
827461 CGATACATGG
827471 TACATTGTATCGA
1 TACATTGTATCGA
827484 TACATTGTATCGA
1 TACATTGTATCGA
827497 TACA-TG-AT-G-
1 TACATTGTATCGA
827506 -A-ATTGTATCGA
1 TACATTGTATCGA
827517 TACATTG
1 TACATTG
827524 CTTCTAACGC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:827497 original size:33 final size:33
Alignment explanation
Indices: 827455--827523 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
827445 CTACCACTGT
*
827455 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
827488 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
827521 TTG
1 TTG
827524 CTTCTAACGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:829652 original size:44 final size:43
Alignment explanation
Indices: 829550--829849 Score: 157
Period size: 44 Copynumber: 6.9 Consensus size: 43
829540 TAAATCTACC
* *
829550 TCATTCCTGTTTGGCATATGGTTACCACCCTGGTCAAACTGTTT
1 TCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAAACT-TTT
* *
829594 TCAAGT--TGATTTGACGTATGGGTACCACCCTGGTCAAACTCTTT
1 TC-ATTCCTG-TTTGACGTATGGTTACCACCCTGGTCAAACT-TTT
* * * * * *
829638 TCATTCCTGCTTGACGTGTGTTTACCACCTTGCTCAACCTTTT
1 TCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAAACTTTT
* * * * * *
829681 TCATTCCTGTTTAATGTATGATTACTA--CTCGTCAAACATTTC
1 TCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAAAC-TTTT
* * * * * *
829723 TCATT-TTGGTCT-AGTGTATGGTTACCACCTTGGTCAGA-TTCT
1 TCATTCCT-GTTTGA-CGTATGGTTACCACCCTGGTCAAACTTTT
** ** * * *
829765 TGTTTGGTCGATATAACGTATGGTTACCACCCTGGTCAAATTTTTT
1 TCATTCCT-G-TTTGACGTATGGTTACCACCCTGGTCAAA-CTTTT
* * *
829811 TC-CTCCTAGTTTGGCGTATGGTTACCACCTTGGTCAAAC
1 TCATTCCT-GTTTGACGTATGGTTACCACCCTGGTCAAAC
829850 GATTTGCATT
Statistics
Matches: 190, Mismatches: 52, Indels: 29
0.70 0.19 0.11
Matches are distributed among these distances:
41 8 0.04
42 27 0.14
43 30 0.16
44 113 0.59
45 8 0.04
46 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (43 bp):
TCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAAACTTTT
Found at i:831777 original size:141 final size:141
Alignment explanation
Indices: 831521--831800 Score: 524
Period size: 141 Copynumber: 2.0 Consensus size: 141
831511 AAAAGACAAA
*
831521 TTAATATTTTACGACTTTTAATATTAACTAATTTGGTTTGAGCTAGATAATTTCAAAGTAAAACT
1 TTAATATTTTACGACTTTTAACATTAACTAATTTGGTTTGAGCTAGATAATTTCAAAGTAAAACT
* * *
831586 CTTTAAACTTCGATTTTTTCTATTCAGAAGACTCGATTACAAAACTTTATTCAGAGGAAACAAGC
66 CTCTAAACTTCGATTTTTTCTATTCAAAAGACTCGATTACAAAACCTTATTCAGAGGAAACAAGC
831651 TCACCTCCTTT
131 TCACCTCCTTT
831662 TTAATATTTTACGACTTTTAACATTAACTAATTTGGTTTGAGCTAGATAATTTCAAAGTAAAACT
1 TTAATATTTTACGACTTTTAACATTAACTAATTTGGTTTGAGCTAGATAATTTCAAAGTAAAACT
831727 CTCTAAACTTCGATTTTTTCTATTCAAAAGACTCGATTACAAAACCTTATTCAGAGGAAACAAGC
66 CTCTAAACTTCGATTTTTTCTATTCAAAAGACTCGATTACAAAACCTTATTCAGAGGAAACAAGC
831792 TCACCTCCT
131 TCACCTCCT
831801 CTAGCTTTTC
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 135 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (141 bp):
TTAATATTTTACGACTTTTAACATTAACTAATTTGGTTTGAGCTAGATAATTTCAAAGTAAAACT
CTCTAAACTTCGATTTTTTCTATTCAAAAGACTCGATTACAAAACCTTATTCAGAGGAAACAAGC
TCACCTCCTTT
Found at i:831904 original size:12 final size:12
Alignment explanation
Indices: 831887--831911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
831877 CCCCCCCCCA
831887 AAAAAAAAAAAG
1 AAAAAAAAAAAG
831899 AAAAAAAAAAAG
1 AAAAAAAAAAAG
831911 A
1 A
831912 GTTTTCTGTA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:832943 original size:20 final size:20
Alignment explanation
Indices: 832920--832981 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
832910 CTTAGGTAAA
832920 AAAAAATTAGGTTCGTTTAT
1 AAAAAATTAGGTTCGTTTAT
* *
832940 --AAAA-TAGG-CCGATCTTAA
1 AAAAAATTAGGTTCG-T-TTAT
*
832958 AAAAAATTAGATTCGTTTAT
1 AAAAAATTAGGTTCGTTTAT
832978 AAAA
1 AAAA
832982 TAGGCCGATC
Statistics
Matches: 31, Mismatches: 5, Indels: 12
0.65 0.10 0.25
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.23
20 11 0.35
21 4 0.13
22 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (20 bp):
AAAAAATTAGGTTCGTTTAT
Found at i:832960 original size:38 final size:38
Alignment explanation
Indices: 832918--832994 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
832908 AGCTTAGGTA
*
832918 AAAAAAAATTAGGTTCGTTTATAAAATAGGCCGATCTT
1 AAAAAAAATTAGATTCGTTTATAAAATAGGCCGATCTT
832956 AAAAAAAATTAGATTCGTTTATAAAATAGGCCGATCTT
1 AAAAAAAATTAGATTCGTTTATAAAATAGGCCGATCTT
832994 A
1 A
832995 GCTTTAACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.31
Consensus pattern (38 bp):
AAAAAAAATTAGATTCGTTTATAAAATAGGCCGATCTT
Found at i:833295 original size:22 final size:23
Alignment explanation
Indices: 833265--833319 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
833255 TAAATATAGG
*
833265 TAAACTTTAATAAAATTTGAGA-
1 TAAATTTTAATAAAATTTGAGAT
833287 TAAATTTTAATAAAATTTGAGAT
1 TAAATTTTAATAAAATTTGAGAT
833310 TAATATTTTA
1 TAA-ATTTTA
833320 GGACAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.70
23 3 0.10
24 6 0.20
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
TAAATTTTAATAAAATTTGAGAT
Found at i:834023 original size:28 final size:29
Alignment explanation
Indices: 833988--834053 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
833978 TTTTTTAGGT
833988 AATTTTTTATATTTTA-TTATATTTAAATA
1 AATTTTTTAT-TTTTATTTATATTTAAATA
834017 AATTTTTTATTTTTATTTATATTTAAATA
1 AATTTTTTATTTTTATTTATATTTAAATA
834046 AATTTTTT
1 AATTTTTT
834054 TTCAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
AATTTTTTATTTTTATTTATATTTAAATA
Found at i:835431 original size:21 final size:21
Alignment explanation
Indices: 835407--835459 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
835397 AAAATATAAA
** *
835407 ATTTAAATTTTATTTAAATTT
1 ATTTAAATTTTAAATAAATAT
*
835428 ATTTATATTTATAAATAAATAT
1 ATTTAAATTT-TAAATAAATAT
835450 -TTTAAATTTT
1 ATTTAAATTTT
835460 TATACATGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 17 0.65
22 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAAATTTTAAATAAATAT
Found at i:835502 original size:14 final size:15
Alignment explanation
Indices: 835480--835519 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
835470 ATATATATTT
*
835480 TTTATTTTTTAA-AA
1 TTTAATTTTTAATAA
835494 TTTAATTTTTAATAA
1 TTTAATTTTTAATAA
835509 TTTAATATTTT
1 TTTAAT-TTTT
835520 TATTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 8 0.35
16 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATTTTTAATAA
Found at i:835503 original size:15 final size:16
Alignment explanation
Indices: 835483--835521 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
835473 TATATTTTTT
835483 ATTTTTTAA-AATTTA
1 ATTTTTTAATAATTTA
835498 A-TTTTTAATAATTTA
1 ATTTTTTAATAATTTA
835513 ATATTTTTA
1 AT-TTTTTA
835522 TTAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTTAATAATTTA
Found at i:835907 original size:13 final size:13
Alignment explanation
Indices: 835882--835960 Score: 69
Period size: 13 Copynumber: 6.3 Consensus size: 13
835872 TATGTTTATG
835882 TTATTTTAT-TAT
1 TTATTTTATATAT
835894 TTATTTTATATAT
1 TTATTTTATATAT
* *
835907 TT-GTAT-TATAT
1 TTATTTTATATAT
*
835918 TTATATTATAT-T
1 TTATTTTATATAT
835930 TTATATTTATAT-T
1 TTAT-TTTATATAT
*
835943 TAATTATTATATAT
1 TTATT-TTATATAT
835957 TTAT
1 TTAT
835961 ATAAATTCTA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
11 7 0.13
12 18 0.34
13 24 0.45
14 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (13 bp):
TTATTTTATATAT
Found at i:835918 original size:11 final size:10
Alignment explanation
Indices: 835883--835933 Score: 59
Period size: 11 Copynumber: 4.8 Consensus size: 10
835873 ATGTTTATGT
835883 TATTTTATTA
1 TATTTTATTA
835893 TTTATTTTA-TA
1 --TATTTTATTA
835904 TATTTGTATTA
1 TATTT-TATTA
835915 TATTTATATTA
1 TATTT-TATTA
835926 TATTTTAT
1 TATTTTAT
835934 ATTTATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 5 0.14
10 5 0.14
11 19 0.53
12 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TATTTTATTA
Found at i:835926 original size:24 final size:25
Alignment explanation
Indices: 835882--835962 Score: 96
Period size: 24 Copynumber: 3.2 Consensus size: 25
835872 TATGTTTATG
*
835882 TTAT-TTTATTATTTATTTTATATAT
1 TTATATTTA-TATTTATATTATATAT
*
835907 TTGTA-TTATATTTATATTATAT-T
1 TTATATTTATATTTATATTATATAT
835930 TTATATTTATATTTAATTATTATATAT
1 TTATATTTATATTT-A-TATTATATAT
835957 TTATAT
1 TTATAT
835963 AAATTCTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 5 0.10
24 21 0.44
25 7 0.15
26 8 0.17
27 7 0.15
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (25 bp):
TTATATTTATATTTATATTATATAT
Found at i:835936 original size:29 final size:28
Alignment explanation
Indices: 835883--835963 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
835873 ATGTTTATGT
* *
835883 TATTTTATTATTTAT-TTTATATATTTG
1 TATTTAATTATTTATATTTATATATTTA
*
835910 TATTATATTTATATTATATTT-TATATTTA
1 TATT-TAATTAT-TTATATTTATATATTTA
835939 TATTTAATTATTATATATTTATATA
1 TATTTAATTATT-TATATTTATATA
835964 AATTCTAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.11
28 18 0.40
29 19 0.42
30 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (28 bp):
TATTTAATTATTTATATTTATATATTTA
Found at i:836344 original size:17 final size:17
Alignment explanation
Indices: 836309--836347 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
836299 TTATCATTAT
*
836309 TTATTTATATTGTGTAA
1 TTATTTATATTGTGAAA
836326 TTATGTTATATT-TGAAA
1 TTAT-TTATATTGTGAAA
836343 TTATT
1 TTATT
836348 AAATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.60
18 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (17 bp):
TTATTTATATTGTGAAA
Found at i:836474 original size:20 final size:21
Alignment explanation
Indices: 836451--836489 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
836441 AGGATTTTAT
*
836451 ATATTTAT-ATTAATTTTAAC
1 ATATTAATAATTAATTTTAAC
*
836471 ATATTAATAATTTATTTTA
1 ATATTAATAATTAATTTTA
836490 TAAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTAATAATTAATTTTAAC
Found at i:836769 original size:18 final size:18
Alignment explanation
Indices: 836748--836793 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
836738 GCATTTTGAA
*
836748 TTTT-ATTTTAAATTTATT
1 TTTTAATTTT-AATATATT
*
836766 TTTTAAATTTAATATATT
1 TTTTAATTTTAATATATT
836784 TTTTAATTTT
1 TTTTAATTTT
836794 TTAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTAATTTTAATATATT
Found at i:836799 original size:26 final size:28
Alignment explanation
Indices: 836763--836820 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
836753 TTTTAAATTT
* *
836763 ATTTTTTAAAT-TT-AATATATTTTTTA
1 ATTTTTTAAATATTAAATAAATTTTTAA
836789 ATTTTTTAAATATTAAATAAATTTTTAA
1 ATTTTTTAAATATTAAATAAATTTTTAA
836817 ATTT
1 ATTT
836821 AAATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 11 0.39
27 2 0.07
28 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTTTTTAAATATTAAATAAATTTTTAA
Found at i:836822 original size:18 final size:19
Alignment explanation
Indices: 836791--836828 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
836781 ATTTTTTAAT
836791 TTTTTAAATATTAAATAAA
1 TTTTTAAATATTAAATAAA
836810 TTTTTAAAT-TTAAATAAA
1 TTTTTAAATATTAAATAAA
836828 T
1 T
836829 AATTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAAATATTAAATAAA
Found at i:836837 original size:18 final size:18
Alignment explanation
Indices: 836793--836844 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
836783 TTTTTAATTT
*
836793 TTTAAATATTAAATAAATT
1 TTTAAAT-TTAAATAAATA
836812 TTTAAATTTAAATAAATAA
1 TTTAAATTTAAATAAAT-A
836831 TTT-AATTATAAATA
1 TTTAAATT-TAAATA
836845 TATGTAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAATTTAAATAAATA
Found at i:843500 original size:19 final size:18
Alignment explanation
Indices: 843476--843512 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
843466 ATCTATATTT
843476 TTTTAAAAATTAAATAAAA
1 TTTT-AAAATTAAATAAAA
*
843495 TTTTAAATTTAAATAAAA
1 TTTTAAAATTAAATAAAA
843513 CTTCAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTTAAAATTAAATAAAA
Found at i:850092 original size:20 final size:20
Alignment explanation
Indices: 850064--850103 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
850054 ACTTAGTACG
850064 CATAGGCCCACATAACTCAA
1 CATAGGCCCACATAACTCAA
* *
850084 CATATGCCCACATAATTCAA
1 CATAGGCCCACATAACTCAA
850104 GACACTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (20 bp):
CATAGGCCCACATAACTCAA
Found at i:852179 original size:33 final size:33
Alignment explanation
Indices: 852141--852208 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
852131 AAATAAAGAT
852141 ATAGATATTGTATAAACATGAAAATATAAGTGA
1 ATAGATATTGTATAAACATGAAAATATAAGTGA
852174 ATAGATATTGTATAAACATGAAAATATAAGTGA
1 ATAGATATTGTATAAACATGAAAATATAAGTGA
852207 AT
1 AT
852209 GCATGTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (33 bp):
ATAGATATTGTATAAACATGAAAATATAAGTGA
Found at i:855342 original size:14 final size:14
Alignment explanation
Indices: 855323--855374 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
855313 TTAAATTATC
*
855323 TTAATTTTTA-AGTT
1 TTAATTTTTATA-AT
855337 TTAATTTTTATAAT
1 TTAATTTTTATAAT
855351 TTAATTTTT-T-A-
1 TTAATTTTTATAAT
855362 TTAATTTTTATAA
1 TTAATTTTTATAA
855375 ATAATTATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
11 9 0.26
12 2 0.06
13 2 0.06
14 20 0.59
15 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTAATTTTTATAAT
Found at i:855524 original size:16 final size:15
Alignment explanation
Indices: 855495--855545 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
855485 ATCAAATTTG
855495 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
*
855510 AACAA-AAAGAAAAAA
1 AA-AAGAAAAAAAAAA
* *
855525 GAAAGAAAAGAAAAGA
1 AAAAGAAAA-AAAAAA
855541 AAAAG
1 AAAAG
855546 GATGAAGGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.07
15 15 0.54
16 11 0.39
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAA
Found at i:855773 original size:72 final size:72
Alignment explanation
Indices: 855697--855833 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
855687 CAAAAGGAGA
* * *
855697 AGCAATCGAAACTCTAAGCAACAGCAACCAGCAACAACCCAAATTCCAGCAAGCAACAGCCATAC
1 AGCAATCGAAACTCCAAGCAACAGCAAACAACAACAACCCAAATTCCAGCAAGCAACAGCCATAC
855762 CAGCAAC
66 CAGCAAC
* * * * *
855769 AGCAATTGAAACTCCAAGTAACAGCAAACAACAGCAACCGAAATTCCAGCAAGCAGCAGCCATAC
1 AGCAATCGAAACTCCAAGCAACAGCAAACAACAACAACCCAAATTCCAGCAAGCAACAGCCATAC
855834 GACCAGCAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.45, C:0.32, G:0.14, T:0.09
Consensus pattern (72 bp):
AGCAATCGAAACTCCAAGCAACAGCAAACAACAACAACCCAAATTCCAGCAAGCAACAGCCATAC
CAGCAAC
Found at i:857583 original size:42 final size:42
Alignment explanation
Indices: 857537--857991 Score: 514
Period size: 42 Copynumber: 11.0 Consensus size: 42
857527 TTTGACTTTG
* * *
857537 GAGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGATCCTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* *
857579 GAGACTTTCCTTCCCTTAGTCTACCTGTCGGCTTTGACCCTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* * ** *
857621 GAGACTTTCTTTCCCTTAGTCTATCTGTCGGCTTTGTCCCTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* *
857663 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGA-TCTT
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* *
857704 GAAAACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTG------
1 G-AGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
*
857741 GAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACCCTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* *
857783 GAGACTTTCCTACCCTTAGTCTACCTGTCGGCTTTGACCCTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* * * * *
857825 GAGACTTTTCCTTCCCTCAGTTTGCCTGTCGGC-TTGACCTTG
1 GAGAC-TTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* * *
857867 GGGACTTTTCTACCCTTAGTCTGCCTATCGGCTTTGACCCTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
* * *
857909 GAGACTTTTCTACCTTTAGCCTGCCTGTCGG-TCTTGACCCTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCT-TTGACCCTA
* * * * * *
857951 GAAACTTTTCTACCCTCAGTTTGCCTATGGGCTTTGACCCT
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCT
857992 GAAGGCTGCT
Statistics
Matches: 357, Mismatches: 45, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
36 32 0.09
37 1 0.00
41 26 0.07
42 274 0.77
43 24 0.07
ACGTcount: A:0.14, C:0.31, G:0.18, T:0.37
Consensus pattern (42 bp):
GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTA
Found at i:857882 original size:204 final size:204
Alignment explanation
Indices: 857532--857903 Score: 575
Period size: 204 Copynumber: 1.8 Consensus size: 204
857522 TCAGGTTTGA
* * * * *
857532 CTTTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGATCCTAGAGACTTTCCTTCCCTTA
1 CTTTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTA
* * * *
857597 GTCTACCTGTCGGCTTTGACCCTAGAGACTTTCTTTCCCTTAGTCTATCTGTCGGCTTTGTCCCT
66 GTCTACCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTCAGTCTACCTGTCGGCTTTGACCCT
*
857662 AGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGATCTTGAAAACTTTCCTTCCCTTAGTCT
131 AGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGATCTTGAAAACTTTCCTTCCCTTAGTCT
857727 GCCTGTCGG
196 GCCTGTCGG
857736 CTTTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTA
1 CTTTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTA
* * * *
857801 GTCTACCTGTCGGCTTTGACCCTGGAGACTTTTCCTTCCCTCAGTTTGCCTGTCGGC-TTGACCT
66 GTCTACCTGTCGGCTTTGACCCTAGAGAC-TTTCCTTCCCTCAGTCTACCTGTCGGCTTTGACCC
* * *
857865 TGGGGACTTTTCTACCCTTAGTCTGCCTATCGGCTTTGA
130 TAGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGA
857904 CCCTAGAGAC
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
204 128 0.85
205 22 0.15
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.38
Consensus pattern (204 bp):
CTTTGGAGACTTTCCTACCCTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTA
GTCTACCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTCAGTCTACCTGTCGGCTTTGACCCT
AGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGATCTTGAAAACTTTCCTTCCCTTAGTCT
GCCTGTCGG
Found at i:858518 original size:18 final size:19
Alignment explanation
Indices: 858497--858543 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
858487 TAATAAGTAG
*
858497 AAATAAAAAATTTTAA-AA
1 AAATAAAAAATATTAATAA
*
858515 AAATAATAAATATTAATAA
1 AAATAAAAAATATTAATAA
858534 AAATAAAAAA
1 AAATAAAAAA
858544 AATCATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAAAATATTAATAA
Found at i:860173 original size:51 final size:51
Alignment explanation
Indices: 860103--860215 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
860093 TTTTCAATGC
* * * *
860103 ATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGT
1 ATCGATACATTTATCAATGTATCGATACATTCTATCTTTCTACCCAGATGT
*
860154 ATCGATACATTTTTCAATGTATCGATACATTCTATCTTTCTACCCAGATGT
1 ATCGATACATTTATCAATGTATCGATACATTCTATCTTTCTACCCAGATGT
860205 ATCGATACATT
1 ATCGATACATT
860216 GAATGTATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (51 bp):
ATCGATACATTTATCAATGTATCGATACATTCTATCTTTCTACCCAGATGT
Found at i:870846 original size:13 final size:13
Alignment explanation
Indices: 870828--870853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
870818 ACACCAAAGT
870828 ATGTATCGATACA
1 ATGTATCGATACA
870841 ATGTATCGATACA
1 ATGTATCGATACA
870854 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:870851 original size:33 final size:33
Alignment explanation
Indices: 870809--870873 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
870799 TAGCCAAACT
* *
870809 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
870842 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
870874 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:877552 original size:21 final size:20
Alignment explanation
Indices: 877504--877544 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
877494 CCCTTAGGCA
* *
877504 GCACTACCAGGTCGCGACCG
1 GCACTCCCAGGTCGCAACCG
877524 GCACTCCCAGGTCGCAACCG
1 GCACTCCCAGGTCGCAACCG
877544 G
1 G
877545 GCAGTCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.41, G:0.29, T:0.10
Consensus pattern (20 bp):
GCACTCCCAGGTCGCAACCG
Found at i:878738 original size:43 final size:43
Alignment explanation
Indices: 878677--878936 Score: 249
Period size: 43 Copynumber: 5.8 Consensus size: 43
878667 AGTTTATCTA
*
878677 GTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
* *
878720 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAAT
*
878768 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
* * *
878811 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAAT
1 GTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAAT
* * * * * *
878863 ATTCTAATTCAAGGCCAGCGATATTGG-GTT-TA--TGCAAAT
1 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
878902 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
878937 ATGAGGTGCC
Statistics
Matches: 177, Mismatches: 23, Indels: 35
0.75 0.10 0.15
Matches are distributed among these distances:
39 29 0.16
40 2 0.01
41 2 0.01
43 65 0.37
44 2 0.01
45 1 0.01
47 1 0.01
48 39 0.22
49 1 0.01
50 1 0.01
52 34 0.19
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:878838 original size:91 final size:91
Alignment explanation
Indices: 878678--878947 Score: 386
Period size: 91 Copynumber: 3.0 Consensus size: 91
878668 GTTTATCTAG
878678 TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
1 TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
878743 TTGGTCTTAAAGACAAGGTGCCAATA
66 TTGGTCTTAAAGACAAGGTGCCAATA
*
878769 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
1 TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
*
878834 TTGGTCTTAAAGATGACAAAGGCGCCAATA
66 TTGGTCTT-AA-A-GAC-AAGGTGCCAATA
* * * * *
878864 TTCTAATTCAAGGCCAGCGATATTGG-GTT-TA--TGCAAATGTGCTGATTCAAGGCCAGCGATA
1 TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
* **
878925 TTGGACTTAAAGATGAGGTGCCA
66 TTGGTCTTAAAGACAAGGTGCCA
878948 CGAAGTTGTG
Statistics
Matches: 163, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
87 7 0.04
88 2 0.01
89 1 0.01
90 2 0.01
91 107 0.66
92 2 0.01
93 2 0.01
94 5 0.03
95 35 0.21
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (91 bp):
TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
TTGGTCTTAAAGACAAGGTGCCAATA
Found at i:879009 original size:35 final size:35
Alignment explanation
Indices: 878943--879076 Score: 157
Period size: 35 Copynumber: 3.9 Consensus size: 35
878933 AAAGATGAGG
* * * *
878943 TGCCACGAAGTTGTGGCCTT-ACAGGAAAAAGGGA
1 TGCCACGGAGGTGTGGGCTTAAAAGGAAAAAGGGA
*
878977 TACCACGGAGGTGTGGGCTTAAAAGGAAAAAGGGA
1 TGCCACGGAGGTGTGGGCTTAAAAGGAAAAAGGGA
*
879012 TGCCACAGAGGTGTGGGCTTAAAAGGGAAAAAGGG-
1 TGCCACGGAGGTGTGGGCTTAAAA-GGAAAAAGGGA
* *
879047 TGCCACGGA-GTCGTGGACTTAAAAAGAAAA
1 TGCCACGGAGGT-GTGGGCTTAAAAGGAAAA
879077 GGTGTCATGG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 23 0.26
35 54 0.62
36 10 0.11
ACGTcount: A:0.36, C:0.14, G:0.34, T:0.16
Consensus pattern (35 bp):
TGCCACGGAGGTGTGGGCTTAAAAGGAAAAAGGGA
Found at i:879142 original size:33 final size:32
Alignment explanation
Indices: 879104--879270 Score: 180
Period size: 31 Copynumber: 5.2 Consensus size: 32
879094 GGCTTTTTGG
* *
879104 AAAAGATGCCACTGAGTCGTAGAATTTGAAGAA
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AGAA
* * * *
879137 AAAAGATGTCACTGTGTCGTGGACGTTGGGGAA
1 AAAAGATGCCACTGAGTCGTGGAC-TTTGAGAA
*
879170 AAAAGACGCCACTGAGTCGTGGAC-TTG-GAA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAA
*
879200 GAAAAGATGCCACTGAGTCGTGAAC-TTG-GAA
1 -AAAAGATGCCACTGAGTCGTGGACTTTGAGAA
*
879231 GAAAAGATGCCACAGAGTCGTGGACTTTGAGAA
1 -AAAAGATGCCACTGAGTCGTGGACTTTGAGAA
*
879264 AAGAGAT
1 AAAAGAT
879271 TTGAAGAATT
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.03
31 53 0.46
32 9 0.08
33 47 0.41
34 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (32 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAGAA
Found at i:880561 original size:16 final size:15
Alignment explanation
Indices: 880550--880606 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
880540 TTTTTTTGTG
*
880550 TTTTTT-TGTTTTGT
1 TTTTTTGTGTTTTTT
880564 TTTTTTGTTGTTTTTAT
1 TTTTTTG-TGTTTTT-T
880581 TTTTTTGTGTTGTTTT
1 TTTTTTGTGTT-TTTT
880597 TTTTTTGTGT
1 TTTTTTGTGT
880607 GTTTGTACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 6 0.16
16 21 0.55
17 11 0.29
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.82
Consensus pattern (15 bp):
TTTTTTGTGTTTTTT
Found at i:880618 original size:19 final size:17
Alignment explanation
Indices: 880556--880610 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
880546 TGTGTTTTTT
*
880556 TGTTTTGTTTTTTTGT-
1 TGTTTTATTTTTTTGTG
880572 TGTTTTTATTTTTTTGTG
1 TG-TTTTATTTTTTTGTG
880590 T-TGTTT-TTTTTTTGTG
1 TGT-TTTATTTTTTTGTG
880606 TGTTT
1 TGTTT
880611 GTACTTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 16 0.47
17 17 0.50
18 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.18, T:0.80
Consensus pattern (17 bp):
TGTTTTATTTTTTTGTG
Found at i:881710 original size:21 final size:21
Alignment explanation
Indices: 881686--881729 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
881676 TTTTTCTAAG
881686 TAAAAATACATATT-GTATCAA
1 TAAAAATA-ATATTGGTATCAA
* *
881707 TAAATATATTATTGGTATCAA
1 TAAAAATAATATTGGTATCAA
881728 TA
1 TA
881730 CACAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (21 bp):
TAAAAATAATATTGGTATCAA
Found at i:881835 original size:19 final size:19
Alignment explanation
Indices: 881811--881893 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
881801 AGATTGCATA
881811 GTATCGATACACACAATAT
1 GTATCGATACACACAATAT
*
881830 GTATCGATACAGGAC-AT-T
1 GTATCGATACA-CACAATAT
* *
881848 G--GC-AGTAGC-CA-AATTT
1 GTATCGA-TA-CACACAATAT
881864 GTATCGATACACACAATAT
1 GTATCGATACACACAATAT
881883 GTATCGATACA
1 GTATCGATACA
881894 GGTCATTGGC
Statistics
Matches: 49, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
15 4 0.08
16 5 0.10
17 2 0.04
18 7 0.14
19 29 0.59
20 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (19 bp):
GTATCGATACACACAATAT
Found at i:881891 original size:53 final size:53
Alignment explanation
Indices: 881811--881946 Score: 263
Period size: 53 Copynumber: 2.6 Consensus size: 53
881801 AGATTGCATA
881811 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
881864 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
881917 GTATCGATACACACAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
881947 TTGGCAGTAG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 82 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:881989 original size:10 final size:10
Alignment explanation
Indices: 881970--882000 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
881960 AATCTCATTT
881970 TCACTGTTCA
1 TCACTGTTCA
*
881980 TCACTATTCA
1 TCACTGTTCA
881990 TCACTGTTCA
1 TCACTGTTCA
882000 T
1 T
882001 GTATCGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:882022 original size:21 final size:22
Alignment explanation
Indices: 881989--882075 Score: 99
Period size: 21 Copynumber: 4.0 Consensus size: 22
881979 ATCACTATTC
881989 ATCACTGTTCATGTATCGATAT
1 ATCACTGTTCATGTATCGATAT
*
882011 ATCACT-TTCATGTATCGATAC
1 ATCACTGTTCATGTATCGATAT
*
882032 ATCACTGTTCATACTGT-TC-ACAT
1 ATCACTGTTC--A-TGTATCGATAT
*
882055 ATCACTATTCATGTATCGATA
1 ATCACTGTTCATGTATCGATA
882076 AAAATCACTG
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
20 3 0.06
21 23 0.43
22 11 0.20
23 11 0.20
24 3 0.06
25 3 0.06
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (22 bp):
ATCACTGTTCATGTATCGATAT
Found at i:882118 original size:13 final size:13
Alignment explanation
Indices: 882100--882164 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
882090 TCACTATTCA
882100 TGTATCGATACAT
1 TGTATCGATACAT
*
882113 TGTATCGATACAG
1 TGTATCGATACAT
882126 TGTATCGATACAT
1 TGTATCGATACAT
*
882139 TGTATCGATACAG
1 TGTATCGATACAT
882152 TGTATCGATACAT
1 TGTATCGATACAT
882165 CATAAATAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:882129 original size:26 final size:26
Alignment explanation
Indices: 882100--882164 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
882090 TCACTATTCA
882100 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTGTATCGATACAG
882126 TGTATCGATACATTGTATCGATACAG
1 TGTATCGATACATTGTATCGATACAG
882152 TGTATCGATACAT
1 TGTATCGATACAT
882165 CATAAATAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAG
Found at i:889057 original size:13 final size:13
Alignment explanation
Indices: 889039--889065 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
889029 TACAAAGTTT
889039 AATGTATCGATAC
1 AATGTATCGATAC
889052 AATGTATCGATAC
1 AATGTATCGATAC
889065 A
1 A
889066 TTGAGTAATG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:889062 original size:33 final size:33
Alignment explanation
Indices: 889020--889085 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
889010 AAATTTCTAG
**
889020 ATGTATCGATACAAAGTTTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
**
889053 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
889086 TTTCCTTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:890416 original size:21 final size:21
Alignment explanation
Indices: 890351--890416 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
890341 AAAGTTGCTG
*
890351 CTAACCCCTTACCAAACCATA
1 CTAACCCTTTACCAAACCATA
* *
890372 CTAAGCCAACTGT---AAA-CATG
1 CTAA-CC--CTTTACCAAACCATA
890392 CTAACCCTTTACCAAACCATA
1 CTAACCCTTTACCAAACCATA
890413 CTAA
1 CTAA
890417 GCCAATGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 14
0.63 0.10 0.27
Matches are distributed among these distances:
17 3 0.09
19 2 0.06
20 10 0.30
21 14 0.42
22 2 0.06
24 2 0.06
ACGTcount: A:0.39, C:0.35, G:0.05, T:0.21
Consensus pattern (21 bp):
CTAACCCTTTACCAAACCATA
Found at i:895987 original size:10 final size:10
Alignment explanation
Indices: 895972--896060 Score: 92
Period size: 10 Copynumber: 8.6 Consensus size: 10
895962 CCTTCGTACA
895972 AAAAAAAAAC
1 AAAAAAAAAC
895982 AAAAAAAAAC
1 AAAAAAAAAC
895992 --AAAAAAAC
1 AAAAAAAAAC
*
896000 AAAAAAAACC
1 AAAAAAAAAC
*
896010 AAGAAAAAAC
1 AAAAAAAAAC
896020 AAAAAAAAACC
1 AAAAAAAAA-C
*
896031 AAAAGCAAAAAAAT
1 --AA--AAAAAAAC
896045 AAAAAAAAAC
1 AAAAAAAAAC
896055 AAAAAA
1 AAAAAA
896061 GGGGTCCAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
8 8 0.12
10 46 0.70
11 1 0.02
12 2 0.03
13 2 0.03
15 7 0.11
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:896076 original size:1 final size:1
Alignment explanation
Indices: 895971--896060 Score: 63
Period size: 1 Copynumber: 90.0 Consensus size: 1
895961 TCCTTCGTAC
* * * ** * * ** *
895971 AAAAAAAAAACAAAAAAAAACAAAAAAACAAAAAAAACCAAGAAAAAACAAAAAAAAACCAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
896036 CAAAAAAATAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
896061 GGGGTCCAGA
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:897337 original size:28 final size:28
Alignment explanation
Indices: 897305--897732 Score: 386
Period size: 28 Copynumber: 14.9 Consensus size: 28
897295 ACGTTCATAT
*
897305 TTTCAAAGCCCATAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
897333 TTTCAAAGCCCACAAGTTAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
897360 TTTTCAAAGCCCACAAGTTAGTGGCA-TC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
897388 TTTTCACAGCCCACAAGTTAGTGGTA-TCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACT-C
897417 TTTCAAAGCCCACAAGTCAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
897444 TCTTCAAAAGACCACATGTCAATGGCA-TCC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACT-C
* * *
897474 TTTCAAAGCCTACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
897502 TTTCAAAGCCCATATAAATTAGTGGCAC-C
1 TTTCAAAGCCC--ACAAGTCAGTGGCACTC
* * *
897531 TTCCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
897559 TTTTAAAGCCCACAAGTTAGTGGTAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
897586 TCTTCAAAGCCCACAAGTCAGTGGCAC-C
1 T-TTCAAAGCCCACAAGTCAGTGGCACTC
* *
897614 ATTTCAAAGCCCACAAGTTAGTGGCATACCC
1 -TTTCAAAGCCCACAAGTCAGTGGC--ACTC
* *
897645 TTTCAAAGCCCACAAGTCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
**
897673 TTTCAAAGCCCACACAAGTTGGTGGCAACTC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTC
*
897704 TTTTCAAAGCCCACACAAGTTAGTGGCAC
1 -TTTCAAAG-CC-CACAAGTCAGTGGCAC
897733 CTATTTTTTT
Statistics
Matches: 342, Mismatches: 40, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
27 17 0.05
28 207 0.61
29 37 0.11
30 50 0.15
31 6 0.02
32 25 0.07
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:897371 original size:56 final size:56
Alignment explanation
Indices: 897305--897733 Score: 486
Period size: 56 Copynumber: 7.5 Consensus size: 56
897295 ACGTTCATAT
* * *
897305 TTTCAAAGCCCATAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
897361 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCACAGCCCACAAGTTAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
897417 TTTCAAAGCCCACAAGTCAGTGGCA-TCTCTTCAAAAGACCACATGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT-TTC-AAAGCCCACAAGTTAGTGGCATCC
* * * *
897474 TTTCAAAGCCTACAAGTCAGTGACACCCTTTCAAAGCCCATATAAATTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC--ACAAGTTAGTGGCATCC
* * * *
897531 TTCCAAAGCCCACAAGTCAATGGCACCCTTTTAAAGCCCACAAGTTAGTGGTA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCC
*
897586 TCTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTTAGTGGCATACCC
1 T-TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAT--CC
* * *
897645 TTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACACAAGTTGGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTTAGTGGC-A-TCC
*
897705 TTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACC
897734 TATTTTTTTA
Statistics
Matches: 313, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
55 15 0.05
56 128 0.41
57 80 0.26
58 44 0.14
59 5 0.02
60 22 0.07
61 3 0.01
62 16 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCC
Done.