Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 18 of 52
Found at i:2780751 original size:13 final size:13
Alignment explanation
Indices: 2780733--2780757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2780723 CATGGCACAT
2780733 TGTATCGATACAA
1 TGTATCGATACAA
2780746 TGTATCGATACA
1 TGTATCGATACA
2780758 TGATGAATTG
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:2780755 original size:33 final size:32
Alignment explanation
Indices: 2780713--2780777 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
2780703 TAACACTGAT
2780713 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
2780746 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
2780778 TTGCTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:2788067 original size:13 final size:13
Alignment explanation
Indices: 2788049--2788074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2788039 CAATTTTTTG
2788049 TGTATCGATACAT
1 TGTATCGATACAT
2788062 TGTATCGATACAT
1 TGTATCGATACAT
2788075 ACTTGGTGTA
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:2788089 original size:32 final size:33
Alignment explanation
Indices: 2788029--2788092 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2788019 TACAAGCCAA
** *
2788029 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2788062 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2788093 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2794224 original size:20 final size:20
Alignment explanation
Indices: 2794182--2794232 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2794172 ACCCTAAAAA
* *
2794182 GTATCGATACACATTTAAAT
1 GTATCGATACAAATTGAAAT
* *
2794202 GTATCGATACAAATTGCATT
1 GTATCGATACAAATTGAAAT
*
2794222 GTATTGATACA
1 GTATCGATACA
2794233 TGACCAAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
GTATCGATACAAATTGAAAT
Found at i:2794332 original size:19 final size:20
Alignment explanation
Indices: 2794308--2794357 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2794298 GCCAAACTTA
**
2794308 TATCGATACA-CACAGTATG
1 TATCGATACATCACAAAATG
*
2794327 TATCGATACATCATAAAATG
1 TATCGATACATCACAAAATG
2794347 TATCGATACAT
1 TATCGATACAT
2794358 TCGCTTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (20 bp):
TATCGATACATCACAAAATG
Found at i:2798103 original size:19 final size:18
Alignment explanation
Indices: 2798079--2798232 Score: 69
Period size: 19 Copynumber: 9.4 Consensus size: 18
2798069 TACATTATAT
2798079 CGATACAAAACTTATGTAC
1 CGATAC-AAACTTATGTAC
*
2798098 CGATAC--A--T-TGTAT
1 CGATACAAACTTATGTAC
2798111 CGATACAACACTTATGTAC
1 CGATACAA-ACTTATGTAC
*
2798130 CGATAC--A--T-TGTAT
1 CGATACAAACTTATGTAC
2798143 CGATACAAAACTTATGTAC
1 CGATAC-AAACTTATGTAC
*
2798162 CGATAC--A--T-TGTAT
1 CGATACAAACTTATGTAC
* *
2798175 CGGTACAAAACTTATGTAT
1 CGATAC-AAACTTATGTAC
*
2798194 CGATAC--A--T-TGTAT
1 CGATACAAACTTATGTAC
2798207 CGATACAACACTTATGTAC
1 CGATACAA-ACTTATGTAC
2798226 CGATACA
1 CGATACA
2798233 TTGTATCGAT
Statistics
Matches: 103, Mismatches: 8, Indels: 48
0.65 0.05 0.30
Matches are distributed among these distances:
13 40 0.39
14 4 0.04
16 8 0.08
18 4 0.04
19 47 0.46
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (18 bp):
CGATACAAACTTATGTAC
Found at i:2798112 original size:32 final size:32
Alignment explanation
Indices: 2798061--2798247 Score: 320
Period size: 32 Copynumber: 5.8 Consensus size: 32
2798051 GTAGTAGCTT
* *
2798061 TGTAGCGATACATTATATCGATACAAAACTTA
1 TGTACCGATACATTGTATCGATACAAAACTTA
*
2798093 TGTACCGATACATTGTATCGATACAACACTTA
1 TGTACCGATACATTGTATCGATACAAAACTTA
2798125 TGTACCGATACATTGTATCGATACAAAACTTA
1 TGTACCGATACATTGTATCGATACAAAACTTA
*
2798157 TGTACCGATACATTGTATCGGTACAAAACTTA
1 TGTACCGATACATTGTATCGATACAAAACTTA
* *
2798189 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTACCGATACATTGTATCGATACAAAACTTA
2798221 TGTACCGATACATTGTATCGATACAAA
1 TGTACCGATACATTGTATCGATACAAA
2798248 TTGTTGAAAT
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 145 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TGTACCGATACATTGTATCGATACAAAACTTA
Found at i:2798207 original size:13 final size:13
Alignment explanation
Indices: 2798189--2798245 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2798179 ACAAAACTTA
2798189 TGTATCGATACAT
1 TGTATCGATACAT
2798202 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
2798220 ATGTACCGATACAT
1 -TGTATCGATACAT
2798234 TGTATCGATACA
1 TGTATCGATACA
2798246 AATTGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2798901 original size:97 final size:97
Alignment explanation
Indices: 2798772--2799005 Score: 337
Period size: 97 Copynumber: 2.4 Consensus size: 97
2798762 TAATTTTTGA
* * * *
2798772 TTAAAAATGGGGTTGGA-TATCCCCTCGAAGGAATGTGGTTGAAGTGTCCCCGATGATGACAATT
1 TTAAAAACGGGGTTGGAGTATCCCCTAGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATT
* * *
2798836 TATGTAAGAATAAGATTTAAACTTTGTTGTAT
66 TAAGTAAGAATAAAATTTAAACTTTGATGTAT
* *
2798868 TTAAAAACGGGGTTGGAGTATCCCCTTGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATT
1 TTAAAAACGGGGTTGGAGTATCCCCTAGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATT
* *
2798933 TAAGTGAGAATAAAATTTAAACTTTGATGTGT
66 TAAGTAAGAATAAAATTTAAACTTTGATGTAT
* *
2798965 TTAAAAGCGGGGTTGG-GTATCCCCTAGGAGGAATAGGGTTG
1 TTAAAAACGGGGTTGGAGTATCCCCTAGGAGGAATGGGGTTG
2799006 GAGTATCCAC
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
96 39 0.31
97 85 0.69
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (97 bp):
TTAAAAACGGGGTTGGAGTATCCCCTAGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATT
TAAGTAAGAATAAAATTTAAACTTTGATGTAT
Found at i:2799741 original size:20 final size:20
Alignment explanation
Indices: 2799716--2799790 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
2799706 TTTTACCTAG
2799716 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2799736 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2799756 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
2799776 ATGTATCGATACATT
1 ATGTATCGATACATT
2799791 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2799838 original size:91 final size:90
Alignment explanation
Indices: 2799670--2799840 Score: 245
Period size: 91 Copynumber: 1.9 Consensus size: 90
2799660 ACCCAGATGC
* * * * *
2799670 ATCGATACATTTTTCAAAGTATCGATATATTCTGTCTTTTACCTAGATGTATCGATACATTTTTC
1 ATCGATACATTCTTCAAAGTATCGATACATTCTATCTTTTACCTAAATATATCGATACATTTTTC
2799735 AATGTATCGATACATGTATGAATGT
66 AATGTATCGATACATGTATGAATGT
* *
2799760 ATCGATATATTCTTCAATGTATCGATACATTCTATCTTTTTA-CTGAAATATATCGATACATTTT
1 ATCGATACATTCTTCAAAGTATCGATACATTCTATC-TTTTACCT-AAATATATCGATACATTTT
*
2799824 TCAATGTATTGATACAT
64 TCAATGTATCGATACAT
2799841 CTAGTTAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
90 33 0.46
91 38 0.54
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (90 bp):
ATCGATACATTCTTCAAAGTATCGATACATTCTATCTTTTACCTAAATATATCGATACATTTTTC
AATGTATCGATACATGTATGAATGT
Found at i:2813335 original size:13 final size:13
Alignment explanation
Indices: 2813317--2813341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2813307 CAAAGATCAG
2813317 TGTATCGATACAA
1 TGTATCGATACAA
2813330 TGTATCGATACA
1 TGTATCGATACA
2813342 TTTGAGTAAT
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:2813419 original size:33 final size:33
Alignment explanation
Indices: 2813382--2813448 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2813372 AGTAGCTTAA
2813382 ATTGTATCGATACAAAAAAGTATGTATCGATAC
1 ATTGTATCGATACAAAAAAGTATGTATCGATAC
* * ***
2813415 ATTGTATTGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAGTATGTATCGATAC
2813448 A
1 A
2813449 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAGTATGTATCGATAC
Found at i:2815459 original size:16 final size:15
Alignment explanation
Indices: 2815438--2815468 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2815428 TCGATACATC
2815438 ACTGTTCATCACTGTT
1 ACTGTTCAT-ACTGTT
2815454 ACTGTTCATACTGTT
1 ACTGTTCATACTGTT
2815469 CACGTATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (15 bp):
ACTGTTCATACTGTT
Found at i:2816072 original size:34 final size:35
Alignment explanation
Indices: 2816009--2816075 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2815999 CTAAGTGATT
2816009 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
2816045 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
2816076 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:2819859 original size:28 final size:29
Alignment explanation
Indices: 2819790--2820261 Score: 368
Period size: 28 Copynumber: 16.2 Consensus size: 29
2819780 TTAATACGAC
2819790 CCTTTTCAAAGCCCACAAGT-TAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* *
2819818 TCCTTCTCAAAGCCCATAAGTCT-GTGGCA
1 -CCTTTTCAAAGCCCACAAGTCTAGTGGCA
*
2819847 CCTTTTTAAAGCCCACAAGTC-AGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* * *
2819875 CCTTTTCAAAGCCCAAAAGTC-AATGGAA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
*
2819903 CCTTCTCAAAGCCCACAAGT-TAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
*
2819931 CCTTCTCAAAGCCCACAAGTC-AGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* *
2819959 TGC-TTTCAAAGCCCAGAAG-CTAGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCTAGTGGCA
2819987 CCTTTTCAAAGCCCACAAGT-TAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* * *
2820015 TCTTTTCAAAGCCGACAAGT-TGGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* *
2820043 CCATTTCGAAGCCCACAAGTC-AGTGGCA
1 CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* *
2820071 TCTTTTCAAAGCCCACACAAGTCGA-TGGCAA
1 CCTTTTCAAAG-CC-CACAAGTCTAGTGGC-A
* *
2820102 CTCCTTTCAAAGCCCACATAAGTC-GGTGGCAA
1 C-CTTTTCAAAGCCCAC--AAGTCTAGTGGC-A
** **
2820134 TTTTTTTTGAAGCCCACAAGTC-AGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCTAGTGGCA
* * * *
2820163 TC-TTTCAAAGCCCACACAAT-TCAGCGACAA
1 CCTTTTCAAAGCCCACA-AGTCT-AGTGGC-A
* *
2820193 CTCCTTTCAAAGCCCACACAAGT-TGGTGGCAA
1 C-CTTTTCAAAG-CC-CACAAGTCTAGTGGC-A
*
2820225 CTCTTTTCAAAGCCTATACAAGT-TAGTGGCA
1 C-CTTTTCAAAGCC--CACAAGTCTAGTGGCA
2820256 CCTTTT
1 CCTTTT
2820262 TTTTAAAAGC
Statistics
Matches: 364, Mismatches: 52, Indels: 53
0.78 0.11 0.11
Matches are distributed among these distances:
27 14 0.04
28 200 0.55
29 32 0.09
30 32 0.09
31 9 0.02
32 68 0.19
33 5 0.01
34 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (29 bp):
CCTTTTCAAAGCCCACAAGTCTAGTGGCA
Found at i:2820115 original size:32 final size:32
Alignment explanation
Indices: 2820074--2820247 Score: 148
Period size: 32 Copynumber: 5.6 Consensus size: 32
2820064 AGTGGCATCT
2820074 TTTCAAAGCCCACACAAGTCGATGGCAACTCC
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCC
* * * **
2820106 TTTCAAAGCCCACATAAGTCGGTGGCAATTTT
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCC
**
2820138 TTTTGAAG-CC-CACAAGTC-AGTGGC-A-T-C
1 TTTCAAAGCCCACACAAGTCGA-TGGCAACTCC
*
2820165 TTTCAAAGCCCACACAATTC-A-GCGACAACTCC
1 TTTCAAAGCCCACACAAGTCGATG-G-CAACTCC
* * *
2820197 TTTCAAAGCCCACACAAGTTGGTGGCAACTCT
1 TTTCAAAGCCCACACAAGTCGATGGCAACTCC
* *
2820229 TTTCAAAGCCTATACAAGT
1 TTTCAAAGCCCACACAAGT
2820248 TAGTGGCACC
Statistics
Matches: 113, Mismatches: 19, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
27 7 0.06
28 4 0.04
29 10 0.09
30 12 0.11
31 3 0.03
32 75 0.66
33 1 0.01
34 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGATGGCAACTCC
Found at i:2820198 original size:91 final size:92
Alignment explanation
Indices: 2820050--2820224 Score: 284
Period size: 91 Copynumber: 1.9 Consensus size: 92
2820040 GCACCATTTC
2820050 GAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCGATGGCAACTCCTTTCAAAGC
1 GAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCGATGGCAACTCCTTTCAAAGC
*
2820115 CCACATAAGTCGGTGGCAATTTTTTTT
66 CCACACAAGTCGGTGGCAATTTTTTTT
*
2820142 GAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACACAATTC-A-GCGACAACTCCTTTCAAA
1 GAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCGATG-G-CAACTCCTTTCAAA
*
2820204 GCCCACACAAGTTGGTGGCAA
64 GCCCACACAAGTCGGTGGCAA
2820225 CTCTTTTCAA
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
89 1 0.01
90 2 0.03
91 52 0.67
92 23 0.29
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (92 bp):
GAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCGATGGCAACTCCTTTCAAAGC
CCACACAAGTCGGTGGCAATTTTTTTT
Found at i:2821188 original size:20 final size:20
Alignment explanation
Indices: 2821163--2821288 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
2821153 TTTTTACCCA
2821163 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
*
2821183 AATGTATTGATACATTTTGTCTTTTACCC
1 AATGTATCGATACA-----T-TTTT---C
*
2821212 AGATGTATCGATAGATTTTTC
1 A-ATGTATCGATACATTTTTC
* * * *
2821233 AATGTATTGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
2821253 AATGTATCAATACATTCTTC
1 AATGTATCGATACATTTTTC
2821273 AATGTATCGATACATT
1 AATGTATCGATACATT
2821289 CTGTCTTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
20 56 0.69
21 2 0.02
24 4 0.05
25 2 0.02
26 4 0.05
29 2 0.02
30 11 0.14
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2822237 original size:20 final size:19
Alignment explanation
Indices: 2822200--2822239 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2822190 TAGTCTTTGA
**
2822200 CCATGCATTTTTTTATGTT
1 CCATGCATTTTTACATGTT
2822219 CCATGCATTTTTAACATGTT
1 CCATGCATTTTT-ACATGTT
2822239 C
1 C
2822240 AACATCTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (19 bp):
CCATGCATTTTTACATGTT
Found at i:2823602 original size:228 final size:228
Alignment explanation
Indices: 2823205--2823665 Score: 922
Period size: 228 Copynumber: 2.0 Consensus size: 228
2823195 TCGAGTTACC
2823205 TTTTTAACAATACCTCATGTGGCCTCTGGAACCTTCAAATCAATTGGAAATAAATTTAGAAAGTG
1 TTTTTAACAATACCTCATGTGGCCTCTGGAACCTTCAAATCAATTGGAAATAAATTTAGAAAGTG
2823270 GGATAGCGCGATGCTGTCCTCTATTTTGGTTTTGGTCAAAATTAGTTTATTTTTCTCAGGTTTCA
66 GGATAGCGCGATGCTGTCCTCTATTTTGGTTTTGGTCAAAATTAGTTTATTTTTCTCAGGTTTCA
2823335 TCCTGAGACATTCGAATGTCTCCATACAACCCCGATCAGCCTTGAAATCCTTTTGGATTTCCTTT
131 TCCTGAGACATTCGAATGTCTCCATACAACCCCGATCAGCCTTGAAATCCTTTTGGATTTCCTTT
2823400 AGACCATGTCAAGGCACAAATACTTTTACATCT
196 AGACCATGTCAAGGCACAAATACTTTTACATCT
2823433 TTTTTAACAATACCTCATGTGGCCTCTGGAACCTTCAAATCAATTGGAAATAAATTTAGAAAGTG
1 TTTTTAACAATACCTCATGTGGCCTCTGGAACCTTCAAATCAATTGGAAATAAATTTAGAAAGTG
2823498 GGATAGCGCGATGCTGTCCTCTATTTTGGTTTTGGTCAAAATTAGTTTATTTTTCTCAGGTTTCA
66 GGATAGCGCGATGCTGTCCTCTATTTTGGTTTTGGTCAAAATTAGTTTATTTTTCTCAGGTTTCA
2823563 TCCTGAGACATTCGAATGTCTCCATACAACCCCGATCAGCCTTGAAATCCTTTTGGATTTCCTTT
131 TCCTGAGACATTCGAATGTCTCCATACAACCCCGATCAGCCTTGAAATCCTTTTGGATTTCCTTT
2823628 AGACCATGTCAAGGCACAAATACTTTTACATCT
196 AGACCATGTCAAGGCACAAATACTTTTACATCT
2823661 TTTTT
1 TTTTT
2823666 GCCCTCATTT
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 233 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (228 bp):
TTTTTAACAATACCTCATGTGGCCTCTGGAACCTTCAAATCAATTGGAAATAAATTTAGAAAGTG
GGATAGCGCGATGCTGTCCTCTATTTTGGTTTTGGTCAAAATTAGTTTATTTTTCTCAGGTTTCA
TCCTGAGACATTCGAATGTCTCCATACAACCCCGATCAGCCTTGAAATCCTTTTGGATTTCCTTT
AGACCATGTCAAGGCACAAATACTTTTACATCT
Found at i:2833942 original size:13 final size:13
Alignment explanation
Indices: 2833924--2833962 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2833914 ACATTTTTCT
2833924 TTGTATCGATACA
1 TTGTATCGATACA
2833937 TTGTATCGATACA
1 TTGTATCGATACA
*
2833950 CTGTATCGATACA
1 TTGTATCGATACA
2833963 GGGGGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2834126 original size:20 final size:20
Alignment explanation
Indices: 2834083--2834128 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2834073 AAATCTTTTG
2834083 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2834104 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2834124 CAAAA
1 CAAAA
2834129 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2836538 original size:13 final size:13
Alignment explanation
Indices: 2836520--2836545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2836510 ACACCAAAGT
2836520 ATGTATCGATACA
1 ATGTATCGATACA
2836533 ATGTATCGATACA
1 ATGTATCGATACA
2836546 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:2836543 original size:33 final size:33
Alignment explanation
Indices: 2836501--2836565 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2836491 TAGCCAAACT
* *
2836501 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2836534 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2836566 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:2845245 original size:33 final size:33
Alignment explanation
Indices: 2845180--2845246 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
2845170 TGTTGGGCAT
* *
2845180 AATGTATCGATACAATTCTTCCTGTTTGGATAC
1 AATGTATCGATACAATTCTTCCTGTATCGATAC
* *
2845213 AATGTATCGATATAA-TGTTCCATGTATCGATAC
1 AATGTATCGATACAATTCTTCC-TGTATCGATAC
2845246 A
1 A
2845247 TTTCACTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACAATTCTTCCTGTATCGATAC
Found at i:2845405 original size:15 final size:16
Alignment explanation
Indices: 2845380--2845409 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2845370 GCCTAAGTCA
2845380 ACCTAATGTATCGATT
1 ACCTAATGTATCGATT
2845396 ACCT-ATGTATCGAT
1 ACCTAATGTATCGAT
2845410 ACTTTGGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (16 bp):
ACCTAATGTATCGATT
Found at i:2846799 original size:30 final size:31
Alignment explanation
Indices: 2846765--2846823 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2846755 CTTACAACAT
*
2846765 TATC-TTTCAAG-GCTAAGATCGAAACCTCCC
1 TATCTTTTCAAGAGCTAAGATAG-AACCTCCC
*
2846795 TATCTTTTCATGAGCTAAGATAGAACCTC
1 TATCTTTTCAAGAGCTAAGATAGAACCTC
2846824 TTAATTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 12 0.48
32 9 0.36
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (31 bp):
TATCTTTTCAAGAGCTAAGATAGAACCTCCC
Found at i:2847279 original size:20 final size:20
Alignment explanation
Indices: 2847254--2847305 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2847244 GTTGGGCTCA
2847254 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
* *
2847274 ATGTATCGGTACAATTCATC
1 ATGTATCGATACAATTCACC
*
2847294 ATGTATTGATAC
1 ATGTATCGATAC
2847306 TTTTAGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:2851449 original size:43 final size:44
Alignment explanation
Indices: 2851402--2852309 Score: 551
Period size: 43 Copynumber: 20.2 Consensus size: 44
2851392 CTTAAGAATG
* * **
2851402 TTAAAG-ATGCTAATATGCTGATTCAAGGCTAGCGATATCAGAC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2851445 TTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TT-AA-A-G-A-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
2851494 TTAAAGGTGAAGGTGCTAATGTGTTGATTCAAGGCCAGTGACATTGGAC
1 TTAAA---GAA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * ** * *
2851543 TTAAAG-GTGCCAATATGCTGATTCATGGCCAAAGACATTGGGC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * *
2851586 TT-AGGAATGCTAATATGCTAATTCAAGGCTAGTGATATTAGG-C
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATT-GGAC
* ** *
2851629 TT-AGGAATGCCAATATGCTGATTCAAGGCCAGTAATATTGGGC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* **
2851672 TT-AAGAATGCAAATATGCTGATTCAAGGCCAGCGATATCAGAC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *** * ** * *
2851715 TTAAAGATGATGCTGCAGTGCACTAATTCAAGGTTAGCAACATTGGAC
1 TTAAAGA--ATGC--CAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2851763 TTAAAGGTGAAGGAGCCAATGTGCTGGTTCAAGGCCAGCGACATTGGAC
1 TTAAA---GAA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2851812 TTAAAG-GTGCCAATATGCTAATTCAAGGCCAGCGACATTAGG-C
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATT-GGAC
* * *
2851855 TT-AGGAATGCCAATATGCTAATTCAAGGCTAGCGATATTAGG-C
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATT-GGAC
* * *
2851898 TT-AGGAATGCCAATATGTTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * ** *
2851941 TT-AGGAATGCCAATATGTTGATTCAAGGCCAACGATATCAGAA
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2851984 TTAAAGATGATGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TT-AA-A-GA--ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2852033 TTAAAGGTGAAGCTACCAATGTGCTGATTCAAGGCCAAGC--CATTAGAC
1 TTAAA---GAA--TGCCAATATGCTGATTCAAGGCC-AGCGATATTGGAC
* *
2852081 TTAAAG-GTGCCAATATGCTGATTCAAGGCTC-GCGACATTAGG-C
1 TTAAAGAATGCCAATATGCTGATTCAAGGC-CAGCGATATT-GGAC
* * * * *
2852124 TT-AGGAATGCCAATATGCTAATTCAAGGCCAACAATATTGGGC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * * * * *
2852167 TT-AGGAATACCAATATACTAATTCAAGGCTAGCAATATTGGGC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2852210 TT-AGGAATGCCAATATGCTAATTCAAGGCCAGCGATATCGGAC
1 TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
2852253 TTAAAGATGATGATGCCAATGTGCTAATTCAAGGCCAGCAACATTGGAC
1 TT-AA-A-GA--ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2852302 TTAGAAGA
1 TTA-AAGA
2852310 GTTGCCACTG
Statistics
Matches: 704, Mismatches: 110, Indels: 98
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.00
42 33 0.05
43 388 0.55
44 11 0.02
45 4 0.01
46 7 0.01
47 10 0.01
48 45 0.06
49 197 0.28
50 3 0.00
51 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (44 bp):
TTAAAGAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2851449 original size:103 final size:101
Alignment explanation
Indices: 2851309--2851497 Score: 229
Period size: 103 Copynumber: 1.9 Consensus size: 101
2851299 GAAAAAAAGA
* * *
2851309 TAATGTGCTGATTCACGGCTAACGACAATAGATTTAAAGATGAAAAAAATGCCAATGTGCTAACT
1 TAATATGCTGATTCAAGGCTAACGACAATAGACTTAAAGATG---AAAATGCCAATGTGCTAACT
* * *
2851374 CAA-GCTAGCGATATTGGGCTTAAGAATGTTAAAGATGC
63 CAAGGCCAGCGACATTGGACTTAAGAATGTTAAAGATGC
* * * * *
2851412 TAATATGCTGATTCAAGGCTAGCGA-TATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
1 TAATATGCTGATTCAAGGCTAACGACAAT-AGACTTAAAGATGAAAATGCCAATGTGCTAACTCA
2851476 AGGCCAGCGACATTGGACTTAA
65 AGGCCAGCGACATTGGACTTAA
2851498 AGGTGAAGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
100 20 0.27
101 17 0.23
102 2 0.03
103 34 0.47
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (101 bp):
TAATATGCTGATTCAAGGCTAACGACAATAGACTTAAAGATGAAAATGCCAATGTGCTAACTCAA
GGCCAGCGACATTGGACTTAAGAATGTTAAAGATGC
Found at i:2851894 original size:269 final size:270
Alignment explanation
Indices: 2851408--2852304 Score: 1327
Period size: 269 Copynumber: 3.3 Consensus size: 270
2851398 AATGTTAAAG
* * * *
2851408 ATGCTAATATGCTGATTCAAGGCTAGCGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGAT
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGATGATGCCAATGTGCTAAT
* * * * *
2851473 TCAAGGCCAGCGACATTGGACTTAAAGGTGAAGGTGCTAATGTGTTGATTCAAGGCCAGTGACAT
66 TCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGAGCCAATGTGCTGATTCAAGGCCAGCGACAT
* ** * *
2851538 TGGACTTAAAGGTGCCAATATGCTGATTCATGGCCAAAGACATTGGGCTTAGGAATGCTAATATG
131 TGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTAGGAATGCCAATATG
* *
2851603 CTAATTCAAGGCTAGTGATATTAGGCTTAGGAATGCCAATATGCTGATTCAAGGCCAGTAATATT
196 CTAATTCAAGGCTAGCGATATTAGGCTTAGGAATGCCAATATGCTGATTCAAGGCCAGCAATATT
*
2851668 GGGCTTAAGA
261 GGGCTTAGGA
* * * **
2851678 ATGCAAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGATGCTG-CAGTGCACTAAT
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGATGATGCCAATGTGCTAAT
** *
2851742 TCAAGGTTAGCAACATTGGACTTAAAGGTGAAGGAGCCAATGTGCTGGTTCAAGGCCAGCGACAT
66 TCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGAGCCAATGTGCTGATTCAAGGCCAGCGACAT
*
2851807 TGGACTTAAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTAGGCTTAGGAATGCCAATATG
131 TGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTAGGAATGCCAATATG
* *
2851872 CTAATTCAAGGCTAGCGATATTAGGCTTAGGAATGCCAATATGTTGATTCAAGGCCAGCGATATT
196 CTAATTCAAGGCTAGCGATATTAGGCTTAGGAATGCCAATATGCTGATTCAAGGCCAGCAATATT
2851937 GGGCTTAGGA
261 GGGCTTAGGA
* * * *
2851947 ATGCCAATATGTTGATTCAAGGCCAACGATATCAGAATTAAAGATGATGATGCCAATGTGCTGAT
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGATGATGCCAATGTGCTAAT
* *
2852012 TCAAGGCCAGCGACATTGGACTTAAAGGTGAAGCTA-CCAATGTGCTGATTCAAGGCCAAGC--C
66 TCAAGGCCAGCAACATTGGACTTAAAGGTGAAG-GAGCCAATGTGCTGATTCAAGGCC-AGCGAC
*
2852074 ATTAGACTTAAAGGTGCCAATATGCTGATTCAAGGCTC-GCGACATTAGGCTTAGGAATGCCAAT
129 ATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC-CAGCGACATTAGGCTTAGGAATGCCAAT
* * * * * * * *
2852138 ATGCTAATTCAAGGCCAACAATATTGGGCTTAGGAATACCAATATACTAATTCAAGGCTAGCAAT
193 ATGCTAATTCAAGGCTAGCGATATTAGGCTTAGGAATGCCAATATGCTGATTCAAGGCCAGCAAT
2852203 ATTGGGCTTAGGA
258 ATTGGGCTTAGGA
* *
2852216 ATGCCAATATGCTAATTCAAGGCCAGCGATATCGGACTTAAAGATGATGATGCCAATGTGCTAAT
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGATGATGCCAATGTGCTAAT
2852281 TCAAGGCCAGCAACATTGGACTTA
66 TCAAGGCCAGCAACATTGGACTTA
2852305 GAAGAGTTGC
Statistics
Matches: 563, Mismatches: 60, Indels: 9
0.89 0.09 0.01
Matches are distributed among these distances:
269 452 0.80
270 107 0.19
271 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (270 bp):
ATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATGATGATGCCAATGTGCTAAT
TCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGAGCCAATGTGCTGATTCAAGGCCAGCGACAT
TGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGGCTTAGGAATGCCAATATG
CTAATTCAAGGCTAGCGATATTAGGCTTAGGAATGCCAATATGCTGATTCAAGGCCAGCAATATT
GGGCTTAGGA
Found at i:2852108 original size:312 final size:304
Alignment explanation
Indices: 2851458--2852247 Score: 820
Period size: 312 Copynumber: 2.5 Consensus size: 304
2851448 AAGATGAAGA
* * * *
2851458 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGAAGGTGCTAATGTGTTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--A----AAGGTGCCAATATGCTAATT
* * * * ** *
2851523 CAAGGCCAGTGACATTGGACTTA--AAGGTGCCAATATGCTGATTCATGGCCAAAGACATTGGGC
60 CAAGGCCAGCGACATTGG-CTTAGGAA--TGCCAATATGCTAATTCAAGGCTAGCGATATTGGGC
* * *
2851586 TTAGGAATGCTAATATGCTAATTCAAGGCTAGTGATATTAGGCTTAGGAATGCCAATATGCTGAT
122 TTAGGAATGCCAATATGCTAATTCAAGGCCAGCGATATTAGGCTTAGGAATGCCAATATGCTGAT
** ** ** *
2851651 TCAAGGCCAGTAATATTGGGCTTAAGAATGCAAATATGCTGATTCAAGGCCAGCGATATCAGACT
187 TCAAGGCCAACAATATCAGAATTAAGAATGCAAATATGCTGATTCAAGGCCAGCGACATCAGACT
* * * ** *
2851716 TAAAGATGATGCTGCAGTGCACTAATTCAAGGTTAGCAACATTGGACTTAAAGG
252 TAAAGATGAAGCTCCAATGCACTAATTCAAGGCAAGC-ACATTAGACTTAAAGG
*
2851770 TGAAGGAGCCAATGTGCTGGTTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTAATT
1 T------GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTAATT
*
2851835 CAAGGCCAGCGACATTAGGCTTAGGAATGCCAATATGCTAATTCAAGGCTAGCGATATTAGGCTT
60 CAAGGCCAGCGACATT-GGCTTAGGAATGCCAATATGCTAATTCAAGGCTAGCGATATTGGGCTT
* * * *
2851900 AGGAATGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAGGAATGCCAATATGTTGATTC
124 AGGAATGCCAATATGCTAATTCAAGGCCAGCGATATTAGGCTTAGGAATGCCAATATGCTGATTC
* * * **
2851965 AAGGCCAACGATATCAGAATTAAAGATGATGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
189 AAGGCCAACAATATCAGAATT--A-A-GA--ATGCAAATATGCTGATTCAAGGCCAGCGACATCA
* ** *
2852030 GACTTAAAGGTGAAGCTACCAATGTGCTGATTCAAGGCCAAGC-CATTAGACTTAAAGG
248 GACTTAAAGATGAAGCT-CCAATGCACTAATTCAAGG-CAAGCACATTAGACTTAAAGG
*
2852088 TGCCAATATGCTGATTCAAGGCTC-GCGACATTAGG-CTT--AGGAATGCCAATATGCTAATTCA
1 TGCCAATGTGCTGATTCAAGGC-CAGCGACATT-GGACTTAAAGG--TGCCAATATGCTAATTCA
* * * * * *
2852149 AGGCCAACAATATTGGGCTTAGGAATACCAATATACTAATTCAAGGCTAGCAATATTGGGCTTAG
62 AGGCCAGCGACATT-GGCTTAGGAATGCCAATATGCTAATTCAAGGCTAGCGATATTGGGCTTAG
2852214 GAATGCCAATATGCTAATTCAAGGCCAGCGATAT
126 GAATGCCAATATGCTAATTCAAGGCCAGCGATAT
2852248 CGGACTTAAA
Statistics
Matches: 403, Mismatches: 54, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
310 3 0.01
312 276 0.68
313 5 0.01
314 3 0.01
315 1 0.00
316 3 0.01
318 95 0.24
319 14 0.03
320 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (304 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTAATTCAAGGC
CAGCGACATTGGCTTAGGAATGCCAATATGCTAATTCAAGGCTAGCGATATTGGGCTTAGGAATG
CCAATATGCTAATTCAAGGCCAGCGATATTAGGCTTAGGAATGCCAATATGCTGATTCAAGGCCA
ACAATATCAGAATTAAGAATGCAAATATGCTGATTCAAGGCCAGCGACATCAGACTTAAAGATGA
AGCTCCAATGCACTAATTCAAGGCAAGCACATTAGACTTAAAGG
Found at i:2852346 original size:32 final size:31
Alignment explanation
Indices: 2852302--2852381 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
2852292 AACATTGGAC
* * *
2852302 TTAGAAGAGTTGCCACTGACTTGTGT-GAGCT
1 TTAGAAGGGTTGCCACCGACTTATGTAG-GCT
2852333 TTAAGAAGGGTTGCCACCGACTTATGTAGGCT
1 TT-AGAAGGGTTGCCACCGACTTATGTAGGCT
*
2852365 TTTGAAGGGTTGCCACC
1 TTAGAAGGGTTGCCACC
2852382 ACCTTGCGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 16 0.37
32 26 0.60
33 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (31 bp):
TTAGAAGGGTTGCCACCGACTTATGTAGGCT
Found at i:2852375 original size:31 final size:30
Alignment explanation
Indices: 2852305--2852403 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 30
2852295 ATTGGACTTA
* * *
2852305 GAAGAGTTGCCACTGACTTGTGTGAGCTTTAA
1 GAAGGGTTGCCACCGACTTGTGTG-GCTTT-T
*
2852337 GAAGGGTTGCCACCGACTTATGTAGGCTTTT
1 GAAGGGTTGCCACCGACTTGTGT-GGCTTTT
*
2852368 GAAGGGTTGCCACC-ACCTTGCGTGGGCTTTT
1 GAAGGGTTGCCACCGA-CTTGTGT-GGCTTTT
2852399 GAAGG
1 GAAGG
2852404 AAGAAGGTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.02
31 31 0.53
32 25 0.43
33 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.29
Consensus pattern (30 bp):
GAAGGGTTGCCACCGACTTGTGTGGCTTTT
Found at i:2852549 original size:62 final size:62
Alignment explanation
Indices: 2852389--2853048 Score: 430
Period size: 61 Copynumber: 10.8 Consensus size: 62
2852379 ACCACCTTGC
** * * * * *
2852389 GTGGGCTTTTGAAGG-AAGAAGGTACCACAGAGTTGTGAACTTAAAAGGGTACCACGGAGTT
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
* * * * * * * * *
2852450 ATAGAC-TTGAAA-G-AAAAATGTGCTACAAAGTTGTAGACTTAGAAA-GGTACCACGAAGTT
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTA-AAAGGGTGCCACGAAGTT
* * * *
2852509 ATGGGCTTTAAAAGGAAAAAAGGTGCCACATAGTTGTAGACTTAAAAGGGTGCCACGGAG-T
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
* * ** * * * * *
2852570 -TGGGCTTTAAAAGGAAAAAGGGTACCATGGAGTTATGGACTTAATAGGGTAAAGGGTACAATGG
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGAC-T--TA----AAAGGGTGCCACGA
2852634 AGTT
59 AGTT
* * * * *
2852638 GTGGAC-TTAAAAGG-GAAAAGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCATGTAA-TT
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG-AAGTT
* * ** * * * *
2852698 ATGGGCTTTAAAAAGAAAAAAAAGGTGCCATGGAGTTATGGATTTAAAAGGATGCCACGGAGTT
1 GTGGGCTTT-AAAAG-GAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
* * * * * *
2852762 GTGGGCTTTAAAAGG--AAAAGG-G----TGAGCTGTGGA-TTAAAAGGATTCCATGAAATT
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
* * * * * *
2852816 GTGGTCTTTGAAAA-GAGAAAAGGTGCCACAGAGTTATTGACTTAAAAGGATGCCACAAAGTT
1 GTGGGCTTT-AAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
* * ** * * *
2852878 GTGAGCTTTAAAA-GAAAAAGGGTGCCATGGAGTTGTAGACTTAAAATGGTGCCAC-AGGGTT
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTT
* * * *
2852939 ATGGGCTTTGAAAA-G-AAAAAGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCATGAAGTT
1 GTGGGCTTT-AAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
* *
2853000 GTAGGCTTTAAAAGGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
2853049 AAAAGATGCC
Statistics
Matches: 468, Mismatches: 97, Indels: 67
0.74 0.15 0.11
Matches are distributed among these distances:
54 26 0.06
55 12 0.03
56 6 0.01
57 1 0.00
59 40 0.09
60 73 0.16
61 110 0.24
62 100 0.21
63 8 0.02
64 46 0.10
66 1 0.00
67 32 0.07
68 9 0.02
69 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.23
Consensus pattern (62 bp):
GTGGGCTTTAAAAGGAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTT
Found at i:2852602 original size:33 final size:32
Alignment explanation
Indices: 2852552--2852658 Score: 106
Period size: 34 Copynumber: 3.2 Consensus size: 32
2852542 TTGTAGACTT
* * *
2852552 AAAAGGGTGCCACGGAGTTGGGCTTTAAAAGGA
1 AAAAGGGTACCATGGAGTTGGGC-TTAAAAGGG
* *
2852585 AAAAGGGTACCATGGAGTTATGGACTTAATAGGG
1 AAAAGGGTACCATGGAG-T-TGGGCTTAAAAGGG
* *
2852619 TAAAGGGTACAATGGAGTTGTGGACTTAAAAGGG
1 AAAAGGGTACCATGGAGTTG-GG-CTTAAAAGGG
2852653 AAAAGG
1 AAAAGG
2852659 TGCCACAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
32 2 0.03
33 17 0.28
34 37 0.62
35 4 0.07
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (32 bp):
AAAAGGGTACCATGGAGTTGGGCTTAAAAGGG
Found at i:2852625 original size:34 final size:34
Alignment explanation
Indices: 2852576--2852686 Score: 125
Period size: 34 Copynumber: 3.3 Consensus size: 34
2852566 GAGTTGGGCT
**
2852576 TTAAAAGGAAAAAGGGTACCATGGAGTTATGGAC
1 TTAAAAGGGTAAAGGGTACCATGGAGTTATGGAC
* * *
2852610 TTAATAGGGTAAAGGGTACAATGGAGTTGTGGAC
1 TTAAAAGGGTAAAGGGTACCATGGAGTTATGGAC
* * ***
2852644 TTAAAAGGG-AAAAGGTGCCACAAAGTTATGGAC
1 TTAAAAGGGTAAAGGGTACCATGGAGTTATGGAC
2852677 TTAAAAGGGT
1 TTAAAAGGGT
2852687 GCCATGTAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
33 26 0.41
34 37 0.59
ACGTcount: A:0.39, C:0.08, G:0.31, T:0.23
Consensus pattern (34 bp):
TTAAAAGGGTAAAGGGTACCATGGAGTTATGGAC
Found at i:2852772 original size:28 final size:27
Alignment explanation
Indices: 2852717--2852777 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
2852707 AAAAAGAAAA
*
2852717 AAAAGG-TGCCATGGAGTTATGGATTT
1 AAAAGGATGCCACGGAGTTATGGATTT
* *
2852743 AAAAGGATGCCACGGAGTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTAT-GGATTT
2852771 AAAAGGA
1 AAAAGGA
2852778 AAAGGGTGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.20
27 12 0.40
28 12 0.40
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.25
Consensus pattern (27 bp):
AAAAGGATGCCACGGAGTTATGGATTT
Found at i:2852799 original size:54 final size:55
Alignment explanation
Indices: 2852734--2852901 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 55
2852724 GCCATGGAGT
* *
2852734 TATGGATTTAAAAGGATGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGGTGAGC
1 TATGGACTTAAAAGGATGCCACGAAGTTGTGGGCTTTAAAAGGAAAAGGGTGAGC
* * * * * * *
2852789 TGTGGA-TTAAAAGGATTCCATGAAATTGTGGTCTTTGAAAAGAGAAAAGGTGCCACAGAGT
1 TATGGACTTAAAAGGATGCCACGAAGTTGTGGGCTTT-AAAAG-GAAAAGG-G----TGAGC
* * * *
2852850 TATTGACTTAAAAGGATGCCACAAAGTTGTGAGCTTTAAAAGAAAAAGGGTG
1 TATGGACTTAAAAGGATGCCACGAAGTTGTGGGCTTTAAAAGGAAAAGGGTG
2852902 CCATGGAGTT
Statistics
Matches: 87, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
54 25 0.29
55 11 0.13
56 7 0.08
57 1 0.01
59 1 0.01
60 6 0.07
61 12 0.14
62 24 0.28
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.25
Consensus pattern (55 bp):
TATGGACTTAAAAGGATGCCACGAAGTTGTGGGCTTTAAAAGGAAAAGGGTGAGC
Found at i:2853035 original size:35 final size:33
Alignment explanation
Indices: 2852981--2853752 Score: 332
Period size: 27 Copynumber: 24.8 Consensus size: 33
2852971 TTATGGACTT
* * *
2852981 AAAAGGGTGCCATGAAGTTGTAGG-CTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGT-GGAC-TTAAAAGG
2853015 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 -AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
2853049 -AAAAGATGCCACGGAGTTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
2853075 AAAATGGTGCCACAGAATTGTAGG-CTTTGTAAA-G
1 AAAAAGGTGCCACGGAGTTGT-GGAC-TT-AAAAGG
**
2853109 AAAAAGGTGCCATTGAGTTGTGGACTT-----G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
2853137 -AAAAGGTGCCATGGAGTTGT-GAGCTTTAAAACG
1 AAAAAGGTGCCACGGAGTTGTGGA-C-TTAAAAGG
*
2853170 AAAAAGGGTGCTACGGAGTTGTGGACTT---A--
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* *
2853199 AAAAA-GTGCCACGAAGTTGTGGGCTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
*
2853232 AAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* ** *
2853266 -AAAAGATGCCATAGAATTGTGGACTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
2853297 ----A-GTGCCACGGAGTTATGGGCTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*** * *
2853324 -----GGTGCCTTAGAGTTATGGGCTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
2853352 AACAAGGTGCCACGAAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
2853385 AAAAAAGGTACCACGGAGTTGTGGACTTAAAAGG
1 -AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
2853419 ----A--TGCCACGAAATTGT-GAGCTTTGAAAA--
1 AAAAAGGTGCCACGGAGTTGTGGA-C-TT-AAAAGG
* * *
2853446 AAAAAGGATGCCACAGAGCTGTGGGCTTTAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGAC-TTAAAAGG
* *
2853481 AAAAAGGGTGTCATGGAGTTGTGGACTTAAAAGG
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* * **
2853515 AAAAA-ATGTCATAGAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** *
2853546 -----GGTGCCATAGAGTTGTGGACAT-AAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
2853572 ----AGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
2853602 AAAAAGGTGCCACAGAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** * *
2853634 -----GGTGCCACAAAGTTATGGGCTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
* * *
2853663 AAAAAGGGTGCCATGGAGTTATAGACTTAAAAGG
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
2853697 -AAAAGATACCACAGAGTTGTGGACTT-AAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
2853727 -AAAAGATGCCACTGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
2853753 TGAAAAAAAA
Statistics
Matches: 587, Mismatches: 82, Indels: 141
0.72 0.10 0.17
Matches are distributed among these distances:
26 8 0.01
27 159 0.27
28 20 0.03
29 11 0.02
30 29 0.05
31 8 0.01
32 91 0.16
33 48 0.08
34 125 0.21
35 84 0.14
36 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:2853068 original size:155 final size:156
Alignment explanation
Indices: 2852859--2853201 Score: 442
Period size: 155 Copynumber: 2.2 Consensus size: 156
2852849 TTATTGACTT
** * *
2852859 AAAAGGATGCCACAAAGTTGT-GAGCTTTAAAAGAAAAAGGGTGCCATGGAGTTGTAGACTTAAA
1 AAAAGG-TGCCACGGAGTTGTGGA-C-TTAAAAGAAAAAGGATGCCACGGAGTTGTAGACTTAAA
** *
2852923 ATGGTGCCACAGGGTTATGGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTATGGACTT-AAAAGG
63 ATGGTGCCACAGAATTATAGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTATGGACTTGAAAA-G
*
2852987 GTGCCATGAAGTTGT-AGGCTTTAAAAGGAA
127 GTGCCATGAAGTTGTGA-GCTTTAAAACGAA
* *
2853017 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-GATGCCACGGAGTTGTGGACTTAAAATG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGATGCCACGGAGTTGTAGACTTAAAATG
* * *** *
2853081 GTGCCACAGAATTGTAGGCTTTGTAAAGAAAAAGGTGCCATTGAGTTGTGGACTTGAAAAGGTGC
66 GTGCCACAGAATTATAGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTATGGACTTGAAAAGGTGC
*
2853146 CATGGAGTTGTGAGCTTTAAAACGAA
131 CATGAAGTTGTGAGCTTTAAAACGAA
* *
2853172 AAAGGGTGCTACGGAGTTGTGGACTTAAAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA
2853202 AAGTGCCACG
Statistics
Matches: 163, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
155 126 0.77
156 16 0.10
157 13 0.08
158 8 0.05
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (156 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGATGCCACGGAGTTGTAGACTTAAAATG
GTGCCACAGAATTATAGGCTTTGAAAAGAAAAAGGTGCCACAAAGTTATGGACTTGAAAAGGTGC
CATGAAGTTGTGAGCTTTAAAACGAA
Found at i:2853072 original size:94 final size:92
Alignment explanation
Indices: 2852949--2853725 Score: 371
Period size: 94 Copynumber: 8.4 Consensus size: 92
2852939 ATGGGCTTTG
* * * * *
2852949 AAAAGAAAAAGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCATGAAGTTGTAGG-CTTTAAAA
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT-GGAC-TTAAAA
2853013 GGAAAAAAGGTGCCACGGAGTTGTGGACTT
64 -GAAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
2853043 AAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAATGGTGCCACAGAA-TTGTAGG-CTTTGTA
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC-GAAGTTGT-GGAC-TT-AA
**
2853106 AAG-AAAAAGGTGCCATTGAGTTGTGGACTT
62 AAGAAAAAAGGTGCCACGGAGTTGTGGACTT
* ** * *
2853136 -----GAAAAGGTGCCATGGAGTTGT-GAGCTTTAAAACGAAAAAGGGTGCTACGGAGTTGTGGA
1 AAAAGGAAAAGATGCCACAGAGTTGTGGA-C-TT-------AAAAGGGTGCCACGAAGTTGTGGA
* *
2853195 CTT-----AAAAAA-GTGCCACGAAGTTGTGGGCTTT
57 CTTAAAAGAAAAAAGGTGCCACGGAGTTGTGGAC-TT
*
2853226 AAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGATGCCATAGAA-TTGTGGAC
1 AAAAGG-AAAAGA-TGCCACAGAGTTGTGGACTTAAAAGG----G-TGCCA-CGAAGTTGTGGAC
* *
2853290 TTAAAAG-----A-GTGCCACGGAGTTATGGGCTT
58 TTAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTT
** * * *
2853319 AAAAGG----G-TGCCTTAGAGTTATGGGCTTAAAAGGAACAAGGTGCCACGAAGTTATGGACTT
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAAA-G-----GGTGCCACGAAGTTGTGGACTT
*
2853379 AAAAGGAAAAAAGGTACCACGGAGTTGTGGACTT
60 AAAA-GAAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
2853413 AAAA-G----GATGCCAC-GAAATTGT-GAGCTTTGAAAAAAAAAGGATGCCAC-AGAGCTGTGG
1 AAAAGGAAAAGATGCCACAG-AGTTGTGGA-C-TT------AAAAGGGTGCCACGA-AGTTGTGG
* * * *
2853470 GCTTTAAAAGGAAAAAGGGTGTCATGGAGTTGTGGACTT
56 AC-TTAAAA-GAAAAAAGGTGCCACGGAGTTGTGGACTT
* * * * *
2853509 AAAAGGAAAAAATGTCATAGAGTTGTGGACTTAAAAGGGTGCCA-TAGAGTTGTGGACAT-AAAG
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAAG
*
2853572 -----AGGTGCCACGGAGTTGTGGGCTTT
65 AAAAAAGGTGCCACGGAGTTGTGGAC-TT
* * * * *
2853596 GAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGGCTTTAAAA
1 -AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAA
* * * *
2853661 GGAAAAAGGGTGCCATGGAGTTATAGACTT
64 -GAAAAAAGGTGCCACGGAGTTGTGGACTT
*
2853691 AAAAGGAAAAGATACCACAGAGTTGTGGACTTAAA
1 AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAA
2853726 GAAAAGATGC
Statistics
Matches: 526, Mismatches: 78, Indels: 158
0.69 0.10 0.21
Matches are distributed among these distances:
86 40 0.08
87 23 0.04
88 70 0.13
89 25 0.05
90 10 0.02
91 2 0.00
92 4 0.01
93 40 0.08
94 167 0.32
95 33 0.06
96 75 0.14
97 14 0.03
98 2 0.00
100 3 0.01
101 15 0.03
102 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (92 bp):
AAAAGGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGA
AAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:2853208 original size:62 final size:60
Alignment explanation
Indices: 2853015--2853263 Score: 261
Period size: 62 Copynumber: 4.1 Consensus size: 60
2853005 CTTTAAAAGG
* *
2853015 AAAAAAGGTGCCACGGAGTTGTG-GAC-TTAAAAGGAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAAA-GTGCCACGGAGTTGTGAG-CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
** * * * **
2853075 AAAATGGTGCCACAGAATTGT-AGGCTTTGTAAAGAAAAAGGTGCCATTGAGTTGTGGACTT
1 AAAAAAGTGCCACGGAGTTGTGA-GCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * * *
2853136 GAAAAGGTGCCATGGAGTTGTGAGCTTTAAAACGAAAAAGGGTGCTACGGAGTTGTGGACTT
1 AAAAAAGTGCCACGGAGTTGTGAGCTTTAAAA-GAAAAA-GGTGCCACGGAGTTGTGGACTT
* * *
2853198 AAAAAAGTGCCACGAAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
1 AAAAAAGTGCCACGGAGTTGTGAGCTTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGACTT
2853260 AAAA
1 AAAA
2853264 GGAAAAGATG
Statistics
Matches: 155, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
59 14 0.09
60 10 0.06
61 55 0.35
62 76 0.49
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (60 bp):
AAAAAAGTGCCACGGAGTTGTGAGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:2853361 original size:33 final size:33
Alignment explanation
Indices: 2853334--2853419 Score: 118
Period size: 34 Copynumber: 2.6 Consensus size: 33
2853324 GGTGCCTTAG
*
2853334 AGTTATGGGCTTAAAAGGAACAAGGTGCCACGA
1 AGTTATGGACTTAAAAGGAACAAGGTGCCACGA
* * *
2853367 AGTTATGGACTTAAAAGGAAAAAAGGTACCACGG
1 AGTTATGGACTTAAAAGG-AACAAGGTGCCACGA
*
2853401 AGTTGTGGACTTAAAAGGA
1 AGTTATGGACTTAAAAGGA
2853420 TGCCACGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 18 0.38
34 29 0.62
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.20
Consensus pattern (33 bp):
AGTTATGGACTTAAAAGGAACAAGGTGCCACGA
Found at i:2853641 original size:61 final size:61
Alignment explanation
Indices: 2853541--2853696 Score: 190
Period size: 61 Copynumber: 2.5 Consensus size: 61
2853531 TTGTGGACTT
* * ** *
2853541 AAAAGGGTGCCATAGAGTTGTGGACAT-AAAGAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAG-GGTGCCACAAAGTTATGGGCTTT-AAAAGG
*
2853602 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGGCTTTAAAAGG
1 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGGCTTTAAAAGG
* * *
2853663 AAAAAGGGTGCCATGGAGTTATAGACTTAAAAGG
1 AAAAA-GGTGCCATAGAGTTGTGGACTTAAAAGG
2853697 AAAAGATACC
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
60 4 0.05
61 50 0.61
62 28 0.34
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (61 bp):
AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGGCTTTAAAAGG
Found at i:2853713 original size:155 final size:151
Alignment explanation
Indices: 2853292--2853763 Score: 452
Period size: 155 Copynumber: 3.0 Consensus size: 151
2853282 TTGTGGACTT
* * * *
2853292 AAAAGAGTGCCACGGAGTTATGGGCTTAAAAGGGTGCCTTAGAGTTATGGGCTTAAAAGGAACAA
1 AAAAG-GTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCATAGAGTTATGGGCTTAAAAGGAAAAA
* * *
2853357 GGTGCCACGAAGTTATGGACTTAAAAGGAAAAAAGGTACCACGGAGTTGTGGACTTAAA-AGGAT
65 GGTGCCATGGAGTTATGGACTTAAAAGG--AAAA-GTACCACAGAGTTGTGGACTTAAAGAGG-T
* * *
2853421 GCCACGAAATTGTGAGCTTTGAAAAA
126 GCCACGGAGTTGTGGGCTTTGAAAAA
* * * * *
2853447 AAAAGGATGCCACAGAGCTGTGGGCTTTAAAAGGAAAAAGGGTGTCATGGAGTTGTGGACTTAAA
1 AAAAGG-TGCCACAGAGTTGTGGGC-TT-------AAAAGGGTGCCATAGAGTTATGGGCTTAAA
* * * * * * *
2853512 AGGAAAAA-ATGTCATAGAGTTGTGGACTTAAAAGG----GTGCCATAGAGTTGTGGACATAAAG
57 AGGAAAAAGGTGCCATGGAGTTATGGACTTAAAAGGAAAAGTACCACAGAGTTGTGGACTTAAAG
2853572 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
122 AGGTGCCACGGAGTTGTGGGCTTTGAAAA-A
* * *
2853603 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGGCTTTAAAAGGAAAAA
1 AAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCATAGAGTTATGGGC-TTAAAAGGAAAAA
* *
2853668 GGGTGCCATGGAGTTATAGACTTAAAAGGAAAAGATACCACAGAGTTGTGGACTTAAAGAAAAGA
65 -GGTGCCATGGAGTTATGGACTTAAAAGGAAAAG-TACCACAGAGTTGTGGACTTAAAG---AGG
* *
2853733 TGCCACTGAGTTGTGGACTTTGAAAAA
125 TGCCACGGAGTTGTGGGCTTTGAAAAA
2853760 AAAA
1 AAAA
2853764 TATTTGAATT
Statistics
Matches: 254, Mismatches: 41, Indels: 42
0.75 0.12 0.12
Matches are distributed among these distances:
147 19 0.07
148 13 0.05
150 22 0.09
154 4 0.02
155 100 0.39
156 12 0.05
157 5 0.02
158 26 0.10
162 21 0.08
163 32 0.13
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (151 bp):
AAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCATAGAGTTATGGGCTTAAAAGGAAAAAG
GTGCCATGGAGTTATGGACTTAAAAGGAAAAGTACCACAGAGTTGTGGACTTAAAGAGGTGCCAC
GGAGTTGTGGGCTTTGAAAAA
Found at i:2853730 original size:30 final size:32
Alignment explanation
Indices: 2853577--2853752 Score: 105
Period size: 30 Copynumber: 5.6 Consensus size: 32
2853567 TAAAGAGGTG
* * * * *
2853577 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTG
1 CCACAGAGTTGTGGAC-TT-AAAAGGAAAAGATA
*
2853611 CCACAGAGTTGTGGACTTAAAAGG----G-TG
1 CCACAGAGTTGTGGACTTAAAAGGAAAAGATA
* * * * *
2853638 CCACAAAGTTATGGGCTTTAAAAGGAAAAAGGGTG
1 CCACAGAGTTGTGGAC-TTAAAAGG-AAAA-GATA
** * *
2853673 CCATGGAGTTATAGACTTAAAAGGAAAAGATA
1 CCACAGAGTTGTGGACTTAAAAGGAAAAGATA
*
2853705 CCACAGAGTTGTGGACTT-AAA-GAAAAGATG
1 CCACAGAGTTGTGGACTTAAAAGGAAAAGATA
*
2853735 CCACTGAGTTGTGGACTT
1 CCACAGAGTTGTGGACTT
2853753 TGAAAAAAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
27 15 0.13
28 9 0.08
30 25 0.22
31 3 0.03
32 21 0.18
33 6 0.05
34 23 0.20
35 13 0.11
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (32 bp):
CCACAGAGTTGTGGACTTAAAAGGAAAAGATA
Found at i:2855038 original size:20 final size:20
Alignment explanation
Indices: 2855013--2855051 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2855003 TTTTGCACTT
2855013 TTTTTCAT-GTTGTTTTTTTG
1 TTTTTCATGGTT-TTTTTTTG
*
2855033 TTTTTCTTGGTTTTTTTTT
1 TTTTTCATGGTTTTTTTTT
2855052 TTACTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.03, C:0.05, G:0.13, T:0.79
Consensus pattern (20 bp):
TTTTTCATGGTTTTTTTTTG
Found at i:2862682 original size:20 final size:21
Alignment explanation
Indices: 2862657--2862700 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
2862647 GATACTTTAA
2862657 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
2862677 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
2862699 AT
1 AT
2862701 CTATACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:2867229 original size:13 final size:13
Alignment explanation
Indices: 2867211--2867235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2867201 CTGCCAGTTT
2867211 ATGTATCGATACA
1 ATGTATCGATACA
2867224 ATGTATCGATAC
1 ATGTATCGATAC
2867236 TAAGCAAAAT
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):
ATGTATCGATACA
Found at i:2868824 original size:34 final size:35
Alignment explanation
Indices: 2868786--2868852 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
2868776 CCTTACAACA
*
2868786 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCAAAGATAG-AACCTCTCTCT
2868820 CTATCTTTTTCAAAGGCAAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCAAAGATAGAACCTCTC
2868853 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCAAAGATAGAACCTCTCTCT
Found at i:2869494 original size:21 final size:21
Alignment explanation
Indices: 2869470--2869526 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2869460 AAAAAATTTA
2869470 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2869491 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2869512 AATGTATCGATACAT
1 AATGTATCGATACAT
2869527 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2869606 original size:19 final size:19
Alignment explanation
Indices: 2869582--2869649 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2869572 AATTCAACAA
2869582 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2869601 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2869616 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2869633 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2869650 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2869621 original size:13 final size:13
Alignment explanation
Indices: 2869603--2869627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2869593 ACATAAGTTT
2869603 TGTATCGATACAA
1 TGTATCGATACAA
2869616 TGTATCGATACA
1 TGTATCGATACA
2869628 TAAGTATTGT
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:2869625 original size:32 final size:32
Alignment explanation
Indices: 2869584--2869646 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2869574 TTCAACAATT
*
2869584 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2869616 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2869647 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2869707 original size:13 final size:13
Alignment explanation
Indices: 2869689--2869714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2869679 CATTTTTCTG
2869689 TGTATCGATACAT
1 TGTATCGATACAT
2869702 TGTATCGATACAT
1 TGTATCGATACAT
2869715 GGATCTTTGT
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:2869711 original size:33 final size:33
Alignment explanation
Indices: 2869669--2869735 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2869659 GCCAAGGAAA
***
2869669 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2869702 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2869735 T
1 T
2869736 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2872247 original size:28 final size:27
Alignment explanation
Indices: 2872180--2872252 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2872170 CTTCACAATC
* *
2872180 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2872207 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2872235 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2872253 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2872297 original size:51 final size:51
Alignment explanation
Indices: 2872235--2872406 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 51
2872225 TTATTTCTGA
* * *
2872235 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
2872286 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-AT-AATC
** * *
2872340 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
2872392 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2872407 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 1 0.01
54 31 0.32
55 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:2872425 original size:28 final size:28
Alignment explanation
Indices: 2872389--2872470 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2872379 ATTTTTCACA
*
2872389 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
2872417 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
2872445 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
2872471 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:2873522 original size:13 final size:13
Alignment explanation
Indices: 2873504--2873529 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2873494 CAATTTTTTG
2873504 TGTATCGATACAT
1 TGTATCGATACAT
2873517 TGTATCGATACAT
1 TGTATCGATACAT
2873530 ACTTGGTGTA
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:2873547 original size:32 final size:33
Alignment explanation
Indices: 2873484--2873547 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
2873474 TACAAGCCAA
** * *
2873484 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCAATACAT
2873517 TGTATCGATAC-ATACTTGGTGTATCAATACA
1 TGTATCGATACAATACTTGGTGTATCAATACA
2873548 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCAATACAT
Found at i:2875568 original size:13 final size:13
Alignment explanation
Indices: 2875550--2875574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2875540 ACTGAAGCAA
2875550 TGTATCGATACAT
1 TGTATCGATACAT
2875563 TGTATCGATACA
1 TGTATCGATACA
2875575 ATTTGGAAAA
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:2877937 original size:414 final size:414
Alignment explanation
Indices: 2877167--2878487 Score: 2597
Period size: 414 Copynumber: 3.2 Consensus size: 414
2877157 TAGTAATTCA
2877167 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
1 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
2877232 TTATTCTCTTTGTATTGATACATTGTGAATAGTATCGATACATTGAGTCCAATGGCTACAAACGG
66 TTATTCTCTTTGTATTGATACATTGTGAATAGTATCGATACATTGAGTCCAATGGCTACAAACGG
*
2877297 CTATAATTTTAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
131 CTATAATTTCAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
2877362 CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
196 CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
2877427 ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
261 ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
2877492 CAAGTTCTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
326 CAAGTTCTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
2877557 ATTATTCTTTCAAAGCTCTTTTAT
391 ATTATTCTTTCAAAGCTCTTTTAT
2877581 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
1 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
*
2877646 TTATTCTCTTTGTATTGATACATTGTGAATAGTATTGATACATTGAGTCCAATGGCTACAAACGG
66 TTATTCTCTTTGTATTGATACATTGTGAATAGTATCGATACATTGAGTCCAATGGCTACAAACGG
2877711 CTATAATTTCAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
131 CTATAATTTCAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
2877776 CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
196 CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
2877841 ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
261 ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
2877906 CAAGTTCTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
326 CAAGTTCTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
2877971 ATTATTCTTTCAAAGCTCTTTTAT
391 ATTATTCTTTCAAAGCTCTTTTAT
2877995 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
1 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
2878060 TTATTCTCTTTGTATTGATACATTGTGAATAGTATCGATACATTGAGTCCAATGGCTACAAACGG
66 TTATTCTCTTTGTATTGATACATTGTGAATAGTATCGATACATTGAGTCCAATGGCTACAAACGG
2878125 CTATAATTTCAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
131 CTATAATTTCAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
2878190 CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
196 CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
2878255 ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
261 ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
*
2878320 CAAGTTTTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
326 CAAGTTCTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
2878385 ATTATTCTTTCAAAGCTCTTTTAT
391 ATTATTCTTTCAAAGCTCTTTTAT
*
2878409 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGTGGTTTATTTAGTTTGTGTTCAT
1 TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
*
2878474 TTATTCTCATTGTA
66 TTATTCTCTTTGTA
2878488 AGTTTGTGTT
Statistics
Matches: 901, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
414 901 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (414 bp):
TTATTCTTTGTACTCAAACTTCCACAAACACCAGCCTTGTAGAGGTTTATTTAGTTTGTGTTCAT
TTATTCTCTTTGTATTGATACATTGTGAATAGTATCGATACATTGAGTCCAATGGCTACAAACGG
CTATAATTTCAAATGCATGTATCGATACATTATGAATTGCATCGATACATAGGAGCATGTAAGTG
CGGAAACAAGGTCTTAACAAGTCAAAAATGGTATACAACATCATCATTTCATCTCCAACAGATAT
ATCATCAATCTAGCCTATAAATACAGCATCTCATCAGCTGAAGATGTAAGAGAAGTGAAGAGAAA
CAAGTTCTTTCATCCATACAACTTCAAAACAAATTCAAGAGCTTAGAATTAAGTTTTCTATTGTT
ATTATTCTTTCAAAGCTCTTTTAT
Found at i:2881639 original size:75 final size:74
Alignment explanation
Indices: 2881517--2881720 Score: 243
Period size: 74 Copynumber: 2.7 Consensus size: 74
2881507 AGGTAGTATT
** *
2881517 ACTAAAATAA-CTTTAATGGACATGTTTCAATGTGAAGGTTCCTACATGATCCTAGACTTGGTTT
1 ACTAAAATAATC-TTAATGGACAT-TTTCAACATGAAGGTTCCCACATGATCCTAGACTTGGTTT
2881581 TATGGTAAATA
64 TATGGTAAATA
* * *
2881592 ATTAAAA-AATTTCTTAATGGACATTTTCAACATGAAGGTTCCCACATG-TACTAGGCTTGGTTT
1 ACTAAAATAA--TCTTAATGGACATTTTCAACATGAAGGTTCCCACATGATCCTAGACTTGGTTT
*
2881655 TATGGTAAATT
64 TATGGTAAATA
* * * * *
2881666 ACTAAAATAATCTTAAAGGACATTTTCAACATAAAGGTTCTCGCATGATCTTAGA
1 ACTAAAATAATCTTAATGGACATTTTCAACATGAAGGTTCCCACATGATCCTAGA
2881721 TTCAGTTTTA
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
73 33 0.30
74 35 0.32
75 29 0.27
76 11 0.10
77 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (74 bp):
ACTAAAATAATCTTAATGGACATTTTCAACATGAAGGTTCCCACATGATCCTAGACTTGGTTTTA
TGGTAAATA
Found at i:2881703 original size:73 final size:74
Alignment explanation
Indices: 2881514--2881714 Score: 246
Period size: 73 Copynumber: 2.7 Consensus size: 74
2881504 ATAAGGTAGT
** * *
2881514 ATTACTAAAATAA-CTTTAATGGACATGTTTCAATGTGAAGGTTCCTACATGATCCTAGACTTGG
1 ATTACTAAAATAATC-TTAATGGACAT-TTTCAACATGAAGGTTCCCACATGATACTAGACTTGG
2881578 TTTTATGGTAA
64 TTTTATGGTAA
* * *
2881589 ATAATTAAAA-AATTTCTTAATGGACATTTTCAACATGAAGGTTCCCACATG-TACTAGGCTTGG
1 ATTACTAAAATAA--TCTTAATGGACATTTTCAACATGAAGGTTCCCACATGATACTAGACTTGG
2881652 TTTTATGGTAA
64 TTTTATGGTAA
* * * *
2881663 ATTACTAAAATAATCTTAAAGGACATTTTCAACATAAAGGTTCTCGCATGAT
1 ATTACTAAAATAATCTTAATGGACATTTTCAACATGAAGGTTCCCACATGAT
2881715 CTTAGATTCA
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
73 33 0.31
74 32 0.30
75 31 0.29
76 11 0.10
77 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (74 bp):
ATTACTAAAATAATCTTAATGGACATTTTCAACATGAAGGTTCCCACATGATACTAGACTTGGTT
TTATGGTAA
Found at i:2882221 original size:57 final size:56
Alignment explanation
Indices: 2882138--2882343 Score: 139
Period size: 58 Copynumber: 3.6 Consensus size: 56
2882128 TACAATGATG
** ** *
2882138 CTAAAATGTATGAAATTATATAATAGTCTTAAAAT-TATGGAAAATGACTAAAATGC
1 CTAAAATACATGAAATTGCATAATAGTCTTAAAATCT-TGGAAAATGACTAAAATGA
* * ** * *
2882194 CTAAAAATTCATGGAATTGCATAATAGTCTTTTAATGCTTGGAAAATGATTACAATGA
1 CT-AAAATACATGAAATTGCATAATAGTCTTAAAAT-CTTGGAAAATGACTAAAATGA
* * * * * * *
2882252 CTTAAATACATGAAATTGCATAAATAATCTT-AAATCATGAAAAATTACTAGAATAA
1 CTAAAATACATGAAATTGCAT-AATAGTCTTAAAATCTTGGAAAATGACTAAAATGA
* *
2882308 CTCTAAATTACAT-AAGAATGCATAAATAGTCTTAAA
1 --CTAAAATACATGAA-ATTGCAT-AATAGTCTTAAA
2882344 TCATAGCAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
56 17 0.15
57 47 0.40
58 50 0.43
59 3 0.03
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (56 bp):
CTAAAATACATGAAATTGCATAATAGTCTTAAAATCTTGGAAAATGACTAAAATGA
Found at i:2882439 original size:20 final size:19
Alignment explanation
Indices: 2882416--2882500 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
2882406 TGAAAAATGG
2882416 CATAAAAATATATGAAATAA
1 CATAAAAATATAT-AAATAA
* *
2882436 CATAAAAATCTCTAAAT--
1 CATAAAAATATATAAATAA
2882453 CATGAAAAATGACTA-AAATAA
1 CAT-AAAAAT-A-TATAAATAA
* **
2882474 TATAAAAATGCATGAAATAA
1 CATAAAAATATAT-AAATAA
2882494 CATAAAA
1 CATAAAA
2882501 GCTCTAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
17 3 0.06
18 7 0.14
19 8 0.16
20 30 0.60
21 2 0.04
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (19 bp):
CATAAAAATATATAAATAA
Found at i:2886390 original size:28 final size:28
Alignment explanation
Indices: 2886358--2886417 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
2886348 TAAGGTACAT
2886358 AAAGTAGGCCATGGTTTATAGGTTTAGA
1 AAAGTAGGCCATGGTTTATAGGTTTAGA
2886386 AAAGTAGGCCATGGTTTATAGGTTTAGA
1 AAAGTAGGCCATGGTTTATAGGTTTAGA
2886414 AAAG
1 AAAG
2886418 ACACATGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (28 bp):
AAAGTAGGCCATGGTTTATAGGTTTAGA
Found at i:2887417 original size:16 final size:16
Alignment explanation
Indices: 2887387--2887416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2887377 GAGATGGAGG
2887387 TTTTTTTTCTGTTTTC
1 TTTTTTTTCTGTTTTC
2887403 TTTTTTTT-TGTTTT
1 TTTTTTTTCTGTTTT
2887417 TTGCTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (16 bp):
TTTTTTTTCTGTTTTC
Found at i:2887418 original size:17 final size:18
Alignment explanation
Indices: 2887387--2887428 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
2887377 GAGATGGAGG
2887387 TTTTTTTTCTGTTTT-CT
1 TTTTTTTTCTGTTTTGCT
* *
2887404 TTTTTTTTGTTTTTTGCT
1 TTTTTTTTCTGTTTTGCT
2887422 TATTTTT
1 T-TTTTT
2887429 CGTGCTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
18 3 0.14
19 5 0.24
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTGTTTTGCT
Found at i:2894943 original size:37 final size:35
Alignment explanation
Indices: 2894899--2894967 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2894889 TTACAAGCCA
* *
2894899 ATGTATCGATACATTTGGTCATGTATTGATACAATGT
1 ATGTATCGATACATCT-GT-ATGTATCGATACAATGT
2894936 ATGTATCGATACATCTGTATGTATCGATACAA
1 ATGTATCGATACATCTGTATGTATCGATACAA
2894968 ATAGTTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 13 0.43
36 2 0.07
37 15 0.50
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (35 bp):
ATGTATCGATACATCTGTATGTATCGATACAATGT
Found at i:2894956 original size:18 final size:18
Alignment explanation
Indices: 2894899--2894966 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
2894889 TTACAAGCCA
*
2894899 ATGTATCGATACATTTGGT
1 ATGTATCGATACATAT-GT
*
2894918 CATGTATTGATACA-ATGT
1 -ATGTATCGATACATATGT
*
2894936 ATGTATCGATACATCTGT
1 ATGTATCGATACATATGT
2894954 ATGTATCGATACA
1 ATGTATCGATACA
2894967 AATAGTTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.28
18 18 0.42
19 1 0.02
20 12 0.28
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (18 bp):
ATGTATCGATACATATGT
Found at i:2899438 original size:34 final size:35
Alignment explanation
Indices: 2899400--2899466 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2899390 CCTTACAACA
2899400 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2899434 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2899467 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2899925 original size:10 final size:10
Alignment explanation
Indices: 2899907--2899936 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2899897 TTAAATGGTG
*
2899907 TGAACAGTGA
1 TGAATAGTGA
2899917 TGAATAGTGA
1 TGAATAGTGA
2899927 TGAATAGTGA
1 TGAATAGTGA
2899937 AAATGAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.30, T:0.27
Consensus pattern (10 bp):
TGAATAGTGA
Found at i:2900149 original size:21 final size:21
Alignment explanation
Indices: 2900123--2900163 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2900113 GTCAACCTTG
2900123 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2900144 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2900164 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2903061 original size:21 final size:22
Alignment explanation
Indices: 2903014--2903063 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
2903004 ATTTTTACTT
2903014 AAAAACATTTGATTTAAAGCTC
1 AAAAACATTTGATTTAAAGCTC
*
2903036 GAAAACATTTG-TTTATAA-CTC
1 AAAAACATTTGATTTA-AAGCTC
2903057 AAAAACA
1 AAAAACA
2903064 CTTATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (22 bp):
AAAAACATTTGATTTAAAGCTC
Found at i:2903156 original size:20 final size:21
Alignment explanation
Indices: 2903118--2903157 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2903108 TTTAAACGAA
2903118 CAAAGCTTGTTTACGATTTTT
1 CAAAGCTTGTTTACGATTTTT
2903139 CAAAGTCTT-TTT-CGATTTT
1 CAAAG-CTTGTTTACGATTTT
2903158 ATTCAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (21 bp):
CAAAGCTTGTTTACGATTTTT
Found at i:2907589 original size:20 final size:20
Alignment explanation
Indices: 2907564--2907601 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2907554 ATTTTCACAA
2907564 TTTGTATCGATACATTGTTC
1 TTTGTATCGATACATTGTTC
2907584 TTTGTATCGATACATTGT
1 TTTGTATCGATACATTGT
2907602 ATCGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.50
Consensus pattern (20 bp):
TTTGTATCGATACATTGTTC
Found at i:2907603 original size:13 final size:13
Alignment explanation
Indices: 2907585--2907612 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2907575 ACATTGTTCT
2907585 TTGTATCGATACA
1 TTGTATCGATACA
2907598 TTGTATCGATACA
1 TTGTATCGATACA
2907611 TT
1 TT
2907613 CTAGGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2910131 original size:51 final size:51
Alignment explanation
Indices: 2910025--2910141 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
2910015 TATTTCCGAG
* * * * *
2910025 GGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCATAATCG
1 GGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCA
* *
2910076 GGGATACTCCAACCCCAGTTTTATTTCCAAAATATCAATTTTCCACCATCA
1 GGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCA
* *
2910127 GGGATGCTCTAACCC
1 GGGATACTCCAACCC
2910142 TGTTATTTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTCCACAATCA
Found at i:2910217 original size:51 final size:51
Alignment explanation
Indices: 2910156--2910265 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 51
2910146 ATTTTCAAGG
** * * *
2910156 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGC
1 GGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTCCACAATCGA
* * *
2910207 GGATACTCCAACTCCAATTTTATTTCCAAAACATCAATTTTTCACCATCGA
1 GGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTCCACAATCGA
2910258 GGATACTC
1 GGATACTC
2910266 TAACGCCATT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCCAATTTTATTTCCAAAACATCAATTTTCCACAATCGA
Found at i:2910357 original size:51 final size:52
Alignment explanation
Indices: 2910284--2910401 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 52
2910274 TTATTTCCAA
* * *
2910284 GGGGATACT-TCAACCCCGATTTTATTTTTAAAACATCAATTTTCCATAATC
1 GGGGATACTCTCAACCCCAATTTTATTTTCAAAACATCAATTTTCCACAATC
* **
2910335 GGGGATACTCT-AACTCCAATTTTATTTTCAAAACATCAATTTTTTACAATC
1 GGGGATACTCTCAACCCCAATTTTATTTTCAAAACATCAATTTTCCACAATC
*
2910386 GAGGATACTC-CAACCC
1 GGGGATACTCTCAACCC
2910402 TGTTATTTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (52 bp):
GGGGATACTCTCAACCCCAATTTTATTTTCAAAACATCAATTTTCCACAATC
Found at i:2910425 original size:260 final size:260
Alignment explanation
Indices: 2909964--2910431 Score: 665
Period size: 260 Copynumber: 1.8 Consensus size: 260
2909954 TCATTTATGT
* * * * *
2909964 TTTTATTTCCAAAACACTAATTTTTTACAATCGGGGATACTCCAACTCCGTTATTTCCGAGGGGA
1 TTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACGCCATTATTTCCAAGGGGA
* * *
2910029 TACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCAG
66 TACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACCCCAA
* * * * *
2910094 TTTTATTTCCAAAATATCAATTTTCCACCATCAGGGATGCTCTAACCCTGTTATTTTCAAGGGGA
131 TTTTATTTCCAAAACATCAATTTTCCACAATCAGGGATACTCCAACCCTGTTATTTTCAAGGAGA
2910159 TACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGCGGATACTCCAACTCCAA
196 TACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGCGGATACTCCAACTCCAA
* *
2910224 TTTTATTTCCAAAACA-TCAATTTTTCACCATCGAGGATACTCTAACGCCATTATTTCCAAGGGG
1 TTTTATTTCCAAAACACT-AATTTTTCACAATCGAGGATACTCCAACGCCATTATTTCCAAGGGG
* * * *
2910288 ATACTTCAACCCC-GATTTTATTTTTAAAACATCAATTTTCCATAATCGGGGATACTCTAACTCC
65 ATACTCCAACCCCAG-TTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACCCC
* ** *
2910352 AATTTTATTTTCAAAACATCAATTTTTTACAATC-GAGGATACTCCAACCCTGTTA-TTTCATCG
129 AATTTTATTTCCAAAACATCAATTTTCCACAATCAG-GGATACTCCAACCCTGTTATTTTCA-AG
2910415 GAGATACTCCAACCCCG
192 GAGATACTCCAACCCCG
2910432 TTATTTCTGA
Statistics
Matches: 181, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
259 8 0.04
260 173 0.96
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (260 bp):
TTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACGCCATTATTTCCAAGGGGA
TACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACCCCAA
TTTTATTTCCAAAACATCAATTTTCCACAATCAGGGATACTCCAACCCTGTTATTTTCAAGGAGA
TACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGCGGATACTCCAACTCCAA
Found at i:2910430 original size:130 final size:129
Alignment explanation
Indices: 2909964--2910431 Score: 595
Period size: 130 Copynumber: 3.6 Consensus size: 129
2909954 TCATTTATGT
* * * *
2909964 TTTTATTTCCAAAACA-CTAATTTTTTACAATCGGGGATACTCCAACTCCGTTATTTCCGAGGGG
1 TTTTATTTCCAAAACATC-AATTTTTCACAATCGAGGATACTCCAACGCCGTTATTT-CAAGGGG
* * *
2910028 ATACTCCAACCTC-AGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCC
64 ATACTCCAACCCCGA-TTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACTCC
*
2910092 AG
128 AA
* * * * *
2910094 TTTTATTTCCAAAATATCAATTTTCCACCATC-AGGGATGCTCTAAC-CCTGTTATTTTCAAGGG
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGA-GGATACTCCAACGCC-GTTA-TTTCAAGGG
* *
2910157 GATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATCGCGGATACTCCAACTCC
63 GATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACTCC
2910222 AA
128 AA
* * *
2910224 TTTTATTTCCAAAACATCAATTTTTCACCATCGAGGATACTCTAACGCCATTATTTCCAAGGGGA
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAACGCCGTTATTT-CAAGGGGA
* * *
2910289 TACTTCAACCCCGATTTTATTTTTAAAACATCAATTTTCCATAATCGGGGATACTCTAACTCCAA
65 TACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACTCCAA
* * * *
2910354 TTTTATTTTCAAAACATCAATTTTTTACAATCGAGGATACTCCAAC-CCTGTTATTTCATCGGAG
1 TTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAACGCC-GTTATTTCA-AGGGG
2910418 ATACTCCAACCCCG
64 ATACTCCAACCCCG
2910432 TTATTTCTGA
Statistics
Matches: 297, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
129 9 0.03
130 281 0.95
131 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (129 bp):
TTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAACGCCGTTATTTCAAGGGGAT
ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAACTCCAA
Found at i:2910449 original size:28 final size:28
Alignment explanation
Indices: 2910389--2910459 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
2910379 TACAATCGAG
*
2910389 GATACTCCAACCCTGTTATTTCATCGGA
1 GATACTCCAACCCCGTTATTTCATCGGA
*
2910417 GATACTCCAACCCCGTTATTTC-T-GAGG
1 GATACTCCAACCCCGTTATTTCATCG-GA
2910444 GAATACTCCAACCCCG
1 G-ATACTCCAACCCCG
2910460 ACTTTATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 35 0.90
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCATCGGA
Found at i:2910518 original size:50 final size:50
Alignment explanation
Indices: 2910463--2910558 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
2910453 AACCCCGACT
* *
2910463 TTATTTCCAAAAT-ATTGATTTCTCACAATCGGGGATATTTCAACCCGGCC
1 TTATTT-CAAAATCATCGATTTCTCACAATCGGGGATATTCCAACCCGGCC
* *
2910513 TTATTTCTAAATCATCGATTTTTCACAATCGGGGATATTCCAACCC
1 TTATTTCAAAATCATCGATTTCTCACAATCGGGGATATTCCAACCC
2910559 CGTTATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 5 0.12
50 36 0.88
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (50 bp):
TTATTTCAAAATCATCGATTTCTCACAATCGGGGATATTCCAACCCGGCC
Found at i:2913153 original size:21 final size:21
Alignment explanation
Indices: 2913120--2913160 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2913110 CTAAGTAAAA
2913120 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
2913141 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
2913161 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:2913229 original size:20 final size:19
Alignment explanation
Indices: 2913200--2913270 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
2913190 ACCCTGAAAA
*
2913200 GTATCAATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
2913220 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
2913239 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
2913260 GTATCGATACA
1 GTATCGATACA
2913271 GGACATTGGC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 4 0.10
20 34 0.85
21 2 0.05
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:2913323 original size:53 final size:53
Alignment explanation
Indices: 2913240--2913376 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
2913230 AAATTGCATA
2913240 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
2913294 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
2913347 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
2913377 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:2913445 original size:21 final size:22
Alignment explanation
Indices: 2913411--2913466 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2913401 TTTTACTATT
2913411 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
2913433 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
2913454 CATCACTGTTCAT
1 CATCACTGTTCAT
2913467 ATGTCACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:2913485 original size:23 final size:23
Alignment explanation
Indices: 2913458--2913503 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2913448 TCGATACATC
* *
2913458 ACTGTTCATATGTCACTATTCAT
1 ACTGTTCACATATCACTATTCAT
*
2913481 ACTGTTCACGTATCACTATTCAT
1 ACTGTTCACATATCACTATTCAT
2913504 GTATCGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (23 bp):
ACTGTTCACATATCACTATTCAT
Found at i:2913574 original size:13 final size:13
Alignment explanation
Indices: 2913556--2913581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2913546 ACATATTTGT
2913556 GTGTATCGATACA
1 GTGTATCGATACA
2913569 GTGTATCGATACA
1 GTGTATCGATACA
2913582 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:2918873 original size:51 final size:52
Alignment explanation
Indices: 2918803--2919188 Score: 157
Period size: 51 Copynumber: 7.3 Consensus size: 52
2918793 CTCAATTCTC
* * * * * *
2918803 CACAATCGAGAATATTCCAACTCCGATTTTATTTTC-AAGACA-CTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTT
**
2918853 CTGTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAATTTT
* * * *** * * *
2918907 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----AT-TTT
* * * * * *** *
2918965 C-CGA--GGGGATACTCCAACCCCGACTTTATCTCC-AAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTT
* * * * * *
2919013 CATAATCGGGGATACTCCAA-TCCCGGTTTTA-TTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAAATTTT
* * * * *
2919064 CCACAATCAGGGATACTCTAACCCCGGTTTTATTTTC-AAAACACC-AATTTT
1 -CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTT
* * *
2919115 CCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAATACCAATTTTT
1 CAC---AATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAAACACCAAATTTT
* *
2919172 CATAATCGAGGATACTC
1 CACAATCGGGGATACTC
2919189 AACCTCGTTA
Statistics
Matches: 249, Mismatches: 58, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 5 0.02
51 70 0.28
52 42 0.17
53 57 0.23
54 24 0.10
55 18 0.07
56 9 0.04
57 13 0.05
58 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAATTTT
Found at i:2918941 original size:27 final size:28
Alignment explanation
Indices: 2918911--2918986 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
2918901 AATTTTCACA
2918911 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
2918938 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
2918966 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2918987 ACTTTATCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:2919105 original size:52 final size:52
Alignment explanation
Indices: 2918969--2919192 Score: 202
Period size: 52 Copynumber: 4.3 Consensus size: 52
2918959 TTATTTCCGA
* * * * *
2918969 GGGGATACTCCAACCCCGACTTTATCTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCCATAATC
* * * * *
2919020 GGGGATACTCCAATCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCCATAATC
* * * * * * *
2919072 AGGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCC-ATAATC
* * *
2919125 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAAATACCAATTTTT-CATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC---AAAACACTAATTTTTCCATAATC
*
2919179 GAGGATACT-CAACC
1 GGGGATACTCCAACC
2919193 TCGTTATTTC
Statistics
Matches: 138, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
51 35 0.25
52 44 0.32
53 32 0.23
54 13 0.09
55 1 0.01
56 13 0.09
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCCATAATC
Found at i:2919211 original size:27 final size:29
Alignment explanation
Indices: 2919176--2919251 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
2919166 ATTTTTCATA
* * *
2919176 ATCGAGGATACT-CAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
2919203 ATCGGGGATACTCCAACCCCGTTACTTCC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
*
2919232 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2919252 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 11 0.26
28 28 0.65
29 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACTTCC
Found at i:2919301 original size:79 final size:79
Alignment explanation
Indices: 2919205--2919409 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 79
2919195 GTTATTTCAT
* * *
2919205 CGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGACTTTATTCCC-AAATCA
* * *
2919269 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * * * ** *
2919284 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
2919349 CGATTTCTCACAAC
66 CGATTTCTCACAAC
* * *
2919363 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG
2919410 TTATTATCTC
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 3 0.03
79 102 0.97
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGACTTTATTCCCAAATCAT
CGATTTCTCACAAC
Found at i:2931730 original size:10 final size:10
Alignment explanation
Indices: 2931715--2931747 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2931705 ATTTTTTTAT
2931715 AAAAAACAAA
1 AAAAAACAAA
*
2931725 AAAAAA-TAA
1 AAAAAACAAA
2931734 AAAAAACAAA
1 AAAAAACAAA
2931744 AAAA
1 AAAA
2931748 CTAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:2931735 original size:17 final size:17
Alignment explanation
Indices: 2931713--2931757 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
2931703 ATATTTTTTT
2931713 ATAAAAAACAA-AAAAAA
1 ATAAAAAA-AACAAAAAA
2931730 ATAAAAAAAACAAAAAA
1 ATAAAAAAAACAAAAAA
2931747 ACTAAAAAAAA
1 A-TAAAAAAAA
2931758 GAGAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.08
17 15 0.58
18 9 0.35
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (17 bp):
ATAAAAAAAACAAAAAA
Found at i:2931753 original size:9 final size:9
Alignment explanation
Indices: 2931715--2931756 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2931705 ATTTTTTTAT
*
2931715 AAAAAACAA
1 AAAAAACTA
*
2931724 AAAAAAATAA
1 AAAAAACT-A
2931734 AAAAAAC-A
1 AAAAAACTA
2931742 AAAAAACTA
1 AAAAAACTA
2931751 AAAAAA
1 AAAAAA
2931757 AGAGAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.29
9 13 0.46
10 7 0.25
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (9 bp):
AAAAAACTA
Found at i:2931764 original size:18 final size:18
Alignment explanation
Indices: 2931715--2931757 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
2931705 ATTTTTTTAT
2931715 AAAAAACAAAAAAAAATAA
1 AAAAAAC-AAAAAAAATAA
*
2931734 AAAAAACAAAAAAACTAA
1 AAAAAACAAAAAAAATAA
2931752 AAAAAA
1 AAAAAA
2931758 GAGAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAACAAAAAAAATAA
Found at i:2932904 original size:55 final size:55
Alignment explanation
Indices: 2932839--2933075 Score: 253
Period size: 55 Copynumber: 4.2 Consensus size: 55
2932829 CACCCTTTAG
*
2932839 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAA
* ** * *
2932894 TCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAA
* * * * *
2932949 TCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACGCAAGTTGGTGGCA-CTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAA
* * * *
2933004 TCCTCAAAAAGAAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAG
1 TCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACCTTTC-AA
2933065 TCCTCAAAGAG
1 TCCTCAAAGAG
2933076 TAGGGCGCTC
Statistics
Matches: 155, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
54 2 0.01
55 113 0.73
56 1 0.01
60 2 0.01
61 37 0.24
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (55 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAA
Found at i:2933074 original size:116 final size:110
Alignment explanation
Indices: 2932836--2933075 Score: 302
Period size: 110 Copynumber: 2.1 Consensus size: 110
2932826 TTTCACCCTT
* *
2932836 TAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTTAA
1 TAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAA
* * * **
2932901 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
66 AAAGAAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
** * * *
2932946 TAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACGCAAGTTGGTGGCA-CTTCCCAGTCCTCA
1 TAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAATCCTCA
2933010 AAAAGAAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
65 AAAAGAAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTCC
2933062 TAGTCCTCAAAGAG
1 TAGTCCTCAAAGAG
2933076 TAGGGCGCTC
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
109 3 0.03
110 67 0.60
111 1 0.01
112 1 0.01
116 39 0.35
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (110 bp):
TAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAA
AAAGAAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:2933277 original size:210 final size:207
Alignment explanation
Indices: 2932894--2933285 Score: 524
Period size: 210 Copynumber: 1.9 Consensus size: 207
2932884 CACCTTTCAA
* *
2932894 TCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGA
* * *
2932959 GCAGGATGCCTTTTAAAGCCCACGCAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGAAGGACGCC
66 GCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC-AAAAGAAGCACGCC
*
2933024 TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGGCGCTCTCT
130 -TCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGGCGCTCTCT
2933089 TTTTCACTCTTTAG
194 TTTTCACTCTTTAG
* *
2933103 TCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAG
* **
2933168 AGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGAG-GGCATTTTTCAGTCCTC-AAAG-A
65 AGCAAGATG------CCTTTTAAAGCCCACACAAGTTG-GTGGCACTTCCCAGTCCTCAAAAGAA
* * * *
2933230 GCAGGCC-GT-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAG
123 GCACGCCTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
2933286 CAGGATGTTT
Statistics
Matches: 160, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
209 44 0.28
210 68 0.43
211 1 0.01
213 6 0.04
214 4 0.03
216 36 0.22
217 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (207 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGA
GCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAGAAGCACGCCT
CTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGGCGCTCTCTTT
TTCACTCTTTAG
Found at i:2933327 original size:116 final size:115
Alignment explanation
Indices: 2933101--2933588 Score: 561
Period size: 116 Copynumber: 4.1 Consensus size: 115
2933091 TTCACTCTTT
* * *
2933101 AGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGCCGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAA
* * * * *
2933166 AGAGCAAGATGTCTTTTCCTTTTAAAGCCCACACAAGTTGAG-GGCATTTTTC
65 AGAGCAGGATGT-TTTTTCTTTTAAAGACCACTCGAGTTG-GTGGCATTTTTC
*
2933218 AGTCCTCAAAGAGCAGGCCGTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGCCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAA
* *
2933283 GAGCAGGATGTTTTTTCTTTTAAAGACCACTCGAGGTGCCG-GGCATTTTCC
66 GAGCAGGATGTTTTTTCTTTTAAAGACCACTCGAGTTG--GTGGCATTTTTC
*
2933334 AGTCCTCAAAGAGCAGGGCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGCCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAA
* * *
2933399 GAGTAGTATGCTTTTTTCTTTTAAAGACCACTCGAGTTGGTGGCA-CTTTC
66 GAGCAGGATG-TTTTTTCTTTTAAAGACCACTCGAGTTGGTGGCATTTTTC
* ** * * ** *
2933449 TAGTCCTCAAAGAGTAGGATGCTTTTTCTTTGTAAAGCCCACACAAGTTGGTGCCACCTTCCAGT
1 -AGTCCTCAAAGAGCAGGCCGC-----CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCTAGT
* ** * *
2933514 CCTCAAAAAGCAGGATGCCTTTTCTTTTCAAAGCCCA-TACGAGTTGGTGGCATTTTTT
59 CCTCAAAGAGCAGGATGTTTTTTCTTTT-AAAGACCACT-CGAGTTGGTGGCATTTTTC
2933572 AGTCCTCAAAGAGCAGG
1 AGTCCTCAAAGAGCAGG
2933589 ACACCTTTTC
Statistics
Matches: 322, Mismatches: 36, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
115 26 0.08
116 129 0.40
117 72 0.22
121 14 0.04
122 78 0.24
123 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (115 bp):
AGTCCTCAAAGAGCAGGCCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAA
GAGCAGGATGTTTTTTCTTTTAAAGACCACTCGAGTTGGTGGCATTTTTC
Found at i:2933340 original size:271 final size:265
Alignment explanation
Indices: 2932739--2933354 Score: 722
Period size: 271 Copynumber: 2.3 Consensus size: 265
2932729 CACTTTTCAA
* * * * * * *
2932739 TCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CGAGTCC
1 TCCTCAAAAAGAAGGACGCCTTCTCCTTTTAAAGACCACACAAGGTGGTGGCA-CTTCCTAGTCC
*
2932803 TCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
65 TCAAAGAGCAGGGCGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
*
2932868 CCACACAAGTTGGTGGCACCTTTCAATCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT
130 CCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT
* * * *
2932933 TGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACGCAAGTTGGTGGCACT
195 TGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
2932998 TCCCAG
260 TCCCAG
* *
2933004 TCCTCAAAAAGAAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
1 TCCTCAAAAAGAAGGACGCCTTCTCCTTTTAAAGACCACACAAGGTGGTGGCACTTCCTAGTCCT
* * * * * *
2933069 CAAAGAGTAGGGCGCTCTCT-TTTTCACTCTTTAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCC
66 CAAAGAGCAGGGCGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
* * * * *
2933133 CACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCAC
131 CACACAAGTTGGTGGCACCTTTC-AATCCTCAAAGAGC-AG--GAC---GCCTTTCAAAGCCCAC
* *
2933198 ACAAGTTGAG-GGCATTTTTCAGTCCTCAAAGAGCAGGCCGTCTTTCAAAGCCCACACAAGTTGG
189 ACAAGTTG-GTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGG
* * *
2933262 TGGCATTTTCTAG
253 TGGCACTTCCCAG
* * * * * * * * *
2933275 TCCTCAAAGAGCAGGATG-TTTTTTCTTTTAAAGACCACTCGAGGTGCCG-GGCATTTTCC-AGT
1 TCCTCAAAAAGAAGGACGCCTTCTCCTTTTAAAGACCACACAAGGTG--GTGGCA-CTTCCTAGT
2933337 CCTCAAAGAGCAGGGCGC
63 CCTCAAAGAGCAGGGCGC
2933355 CTTTCAAAGC
Statistics
Matches: 300, Mismatches: 39, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
264 64 0.21
265 86 0.29
266 2 0.01
268 2 0.01
270 21 0.07
271 119 0.40
272 6 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (265 bp):
TCCTCAAAAAGAAGGACGCCTTCTCCTTTTAAAGACCACACAAGGTGGTGGCACTTCCTAGTCCT
CAAAGAGCAGGGCGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
CACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTT
GGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
CCCAG
Found at i:2933451 original size:177 final size:170
Alignment explanation
Indices: 2933183--2933588 Score: 424
Period size: 177 Copynumber: 2.3 Consensus size: 170
2933173 GATGTCTTTT
*
2933183 CCTTTTAAAGCCCACACAAGTTGAG-GGCATTTTTCAGTCCTCAAAGAGCAGGCCGTCTTTCAAA
1 CCTTTCAAAGCCCACACAAGTTG-GTGGCATTTTT-AGTCCTCAAAGAGCAGGCCGTCTTTCAAA
* * *
2933247 GCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGTTTTTTCTTT-TAAAGACC
64 GACCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTGTAAAGACC
* * * ** *
2933311 ACTCGAGGTGCCG-GGCATTTTCCAGTCCTCAAAGAGCAGG-GC
129 ACACAAGGTG--GTGCCACCTTCCAGTCCTCAAAAAGCAGGAGC
* **
2933353 GCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGTATGCTTTTTTCT
1 -CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TAGTCCTCAAAGAGCAG---GC---CGTCT
* * * *
2933418 TTTAAAGACCACTCGAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTGTA
58 TTCAAAGACCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTGTA
* *
2933483 AAGCCCACACAAGTTGGTGCCACCTTCCAGTCCTCAAAAAGCAGGATGC
123 AAGACCACACAAGGTGGTGCCACCTTCCAGTCCTCAAAAAGCAGGA-GC
* *
2933532 CTTTTCTTTTCAAAGCCCATACGAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGG
1 C----C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTAGTCCTCAAAGAGCAGG
2933589 ACACCTTTTC
Statistics
Matches: 195, Mismatches: 22, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
170 1 0.01
171 45 0.23
172 1 0.01
174 2 0.01
176 1 0.01
177 81 0.42
178 15 0.08
179 2 0.01
180 1 0.01
182 1 0.01
183 41 0.21
184 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (170 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTCAAAGAGCAGGCCGTCTTTCAAAGA
CCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTGTAAAGACCAC
ACAAGGTGGTGCCACCTTCCAGTCCTCAAAAAGCAGGAGC
Found at i:2933596 original size:61 final size:60
Alignment explanation
Indices: 2933122--2933603 Score: 495
Period size: 61 Copynumber: 8.1 Consensus size: 60
2933112 AGTAGGACGC
* *
2933122 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGATGTCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
*
2933183 CCTTTTAAAGCCCACACAAGTTGAG-GGCATTTT-TCAGTCCTCAAAGAGCA-G--GCC--GT
1 -CTTTTAAAGCCCACACAAGTTG-GTGGCATTTTCT-AGTCCTCAAAGAGCAGGATGCCTTTT
* **
2933239 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGTTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * * **
2933299 CTTTTAAAGACCACTCGAGGTGCCG-GGCATTTTCCAGTCCTCAAAGAGCAGGGCGCC-TTT
1 CTTTTAAAGCCCACACAAGTTG--GTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
2933359 C----AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGTAGTATGCTTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGC-CTTTT
* * * * * *
2933416 CTTTTAAAGACCACTCGAGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* ** * *
2933476 CTTTGTAAAGCCCACACAAGTTGGTGCCACCTTCCAGTCCTCAAAAAGCAGGATGCCTTTT
1 CTTT-TAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
* * * **
2933537 CTTTTCAAAGCCCATACGAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACACCTTTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
2933598 CCTTTT
1 -CTTTT
2933604 TGCCTTTGTC
Statistics
Matches: 349, Mismatches: 50, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
54 2 0.01
55 70 0.20
56 16 0.05
57 4 0.01
58 3 0.01
60 34 0.10
61 187 0.54
62 32 0.09
63 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (60 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:2933663 original size:45 final size:42
Alignment explanation
Indices: 2933594--2933714 Score: 120
Period size: 45 Copynumber: 2.8 Consensus size: 42
2933584 GCAGGACACC
*
2933594 TTTTCCTTTTTGCC-TTTGTCCTCAAATAGCATGACACACTTCA
1 TTTTCC-TTTT-CCTTTTGTCCTCAAAGAGCATGACACACTTCA
* * * *
2933637 TTCTCTTCTTTTCCCTTTTGTCCTCAAAGAGTA-GAACGCACTTTA
1 TT-T-TCCTTTT-CCTTTTGTCCTCAAAGAGCATG-ACACACTTCA
*
2933682 TTTTCCTTTTTCTTTTGTCCTCAAAGAGCATGA
1 TTTTCCTTTTCCTTTTGTCCTCAAAGAGCATGA
2933715 TGCATTTCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
42 19 0.30
43 9 0.14
44 9 0.14
45 27 0.42
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.44
Consensus pattern (42 bp):
TTTTCCTTTTCCTTTTGTCCTCAAAGAGCATGACACACTTCA
Found at i:2933808 original size:41 final size:40
Alignment explanation
Indices: 2933763--2934023 Score: 148
Period size: 41 Copynumber: 6.5 Consensus size: 40
2933753 TAGGACGTAC
*
2933763 TCTTTTTCACTTTGTCCTTAAGAAGCAGGACACTTTCCTTT
1 TCTTTTTC-CTTTGTCCTCAAGAAGCAGGACACTTTCCTTT
* * * *
2933804 TCTTTCTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTCATTC
1 TCTTT-TTCCTTTGTCCTCAAGAAGCAGGACAC--TTTCCTTT
* * **
2933846 TCTTTTT-TTTTGTCCTCAA-AGAGCAGGACGCATTTTGTTT
1 TCTTTTTCCTTTGTCCTCAAGA-AGCAGGACAC-TTTCCTTT
* * * * *
2933886 TCCTTTTTTTCTTTGTCCTTAAAAAGCAGG--AC-GTAC---
1 T-C-TTTTTCCTTTGTCCTCAAGAAGCAGGACACTTTCCTTT
* *
2933922 TCTTTTTCACTTTTTCCTCAAGAAACAGGACACTTTCCTTT
1 TCTTTTTC-CTTTGTCCTCAAGAAGCAGGACACTTTCCTTT
* * * *
2933963 TCTTTCTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTC-AT
1 TCTTT-TTCCTTTGTCCTCAAGAAGCAGGACACT-TTCCTTT
*
2934003 TCTCTTTTCCTTTATCCTCAA
1 TCT-TTTTCCTTTGTCCTCAA
2934024 AAAGTGGGAC
Statistics
Matches: 170, Mismatches: 31, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
34 5 0.03
35 17 0.10
36 1 0.01
37 2 0.01
38 2 0.01
39 1 0.01
40 46 0.27
41 57 0.34
42 22 0.13
43 16 0.09
44 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (40 bp):
TCTTTTTCCTTTGTCCTCAAGAAGCAGGACACTTTCCTTT
Found at i:2933893 original size:40 final size:43
Alignment explanation
Indices: 2933813--2933918 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 43
2933803 TTCTTTCTTC
* *
2933813 CTTTGTCCTCAAGGAGCAAGAC-CTATTTCATTCT-CTTTTTT
1 CTTTGTCCTCAAAGAGCAGGACGCTATTTCATTCTCCTTTTTT
** *
2933854 -TTTGTCCTCAAAGAGCAGGACGC-ATTTTGTTTTCCTTTTTTT
1 CTTTGTCCTCAAAGAGCAGGACGCTATTTCATTCTCC-TTTTTT
* *
2933896 CTTTGTCCTTAAAAAGCAGGACG
1 CTTTGTCCTCAAAGAGCAGGACG
2933919 TACTCTTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 26 0.48
41 2 0.04
42 6 0.11
43 20 0.37
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.42
Consensus pattern (43 bp):
CTTTGTCCTCAAAGAGCAGGACGCTATTTCATTCTCCTTTTTT
Found at i:2933935 original size:43 final size:42
Alignment explanation
Indices: 2933848--2933936 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 42
2933838 TTTCATTCTC
* * *
2933848 TTTTTTTTTGTCCTCAAAGAGCAGGACGCATTTTGTTTTCCT
1 TTTTTTTTTGTCCTCAAAAAGCAGGACGCACTCTGTTTTCCT
* *
2933890 TTTTTTCTTTGTCCTTAAAAAGCAGGACGTACTCT-TTTTCACT
1 TTTTTT-TTTGTCCTCAAAAAGCAGGACGCACTCTGTTTTC-CT
2933933 TTTT
1 TTTT
2933937 CCTCAAGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
42 11 0.28
43 29 0.73
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.49
Consensus pattern (42 bp):
TTTTTTTTTGTCCTCAAAAAGCAGGACGCACTCTGTTTTCCT
Found at i:2933983 original size:159 final size:159
Alignment explanation
Indices: 2933687--2934024 Score: 532
Period size: 159 Copynumber: 2.1 Consensus size: 159
2933677 CTTTATTTTC
* * * *
2933687 CTTTTTCTTTTGTCCTCAAAGAGCATGATGCATTTCGTATTCCTTTTTTCCTTTGTTCTCGAAAA
1 CTTTTT-TTTTGTCCTCAAAGAGCAGGACGCATTTCGTATTCCTTTTTTCCTTTGTCCTCAAAAA
* * *
2933752 GTAGGACGTACTCTTTTTCACTTTGTCCTTAAGAAGCAGGACACTTTCCTTTTCTTTCTTCCTTT
65 GCAGGACGTACTCTTTTTCACTTTGTCCTCAAGAAACAGGACACTTTCCTTTTCTTTCTTCCTTT
2933817 GTCCTCAAGGAGCAAGACCTATTTCATTCT
130 GTCCTCAAGGAGCAAGACCTATTTCATTCT
* * * *
2933847 CTTTTTTTTTGTCCTCAAAGAGCAGGACGCATTTTGTTTTCCTTTTTTTCTTTGTCCTTAAAAAG
1 CTTTTTTTTTGTCCTCAAAGAGCAGGACGCATTTCGTATTCCTTTTTTCCTTTGTCCTCAAAAAG
*
2933912 CAGGACGTACTCTTTTTCACTTTTTCCTCAAGAAACAGGACACTTTCCTTTTCTTTCTTCCTTTG
66 CAGGACGTACTCTTTTTCACTTTGTCCTCAAGAAACAGGACACTTTCCTTTTCTTTCTTCCTTTG
2933977 TCCTCAAGGAGCAAGACCTATTTCATTCT
131 TCCTCAAGGAGCAAGACCTATTTCATTCT
** *
2934006 CTTTTCCTTTATCCTCAAA
1 CTTTTTTTTTGTCCTCAAA
2934025 AAGTGGGACA
Statistics
Matches: 163, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
159 157 0.96
160 6 0.04
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.43
Consensus pattern (159 bp):
CTTTTTTTTTGTCCTCAAAGAGCAGGACGCATTTCGTATTCCTTTTTTCCTTTGTCCTCAAAAAG
CAGGACGTACTCTTTTTCACTTTGTCCTCAAGAAACAGGACACTTTCCTTTTCTTTCTTCCTTTG
TCCTCAAGGAGCAAGACCTATTTCATTCT
Found at i:2934049 original size:83 final size:82
Alignment explanation
Indices: 2933766--2934050 Score: 255
Period size: 83 Copynumber: 3.5 Consensus size: 82
2933756 GACGTACTCT
* * *
2933766 TTTTCACTTTGTCCTTAAGAAGCAGGACA-CTTTCCTTTTCTTTCTTCCTTTGTCCTCAAGGAGC
1 TTTTC-CTTTATCCTCAAAAAGCAGGACACCTTTCCTTTTCTTTCTTCCTTTGTCCTCAAGGAGC
2933830 AAGACCTATTTCATTCTC
65 AAGACCTATTTCATTCTC
** * * * * ** * * * **
2933848 TTTTTTTTTGTCCTCAAAGAGCAGGACGCATTTTGTTTTCCTTTTTTTCTTTGTCCTTAAAAAGC
1 TTTTCCTTTATCCTCAAAAAGCAGGACACCTTTCCTTTT-CTTTCTTCCTTTGTCCTCAAGGAGC
* *
2933913 AGGACGTA---C--TCT-
65 AAGACCTATTTCATTCTC
*
2933925 TTTTCACTTTTTCCTCAAGAAA-CAGGACA-CTTTCCTTTTCTTTCTTCCTTTGTCCTCAAGGAG
1 TTTTC-CTTTATCCTCAA-AAAGCAGGACACCTTTCCTTTTCTTTCTTCCTTTGTCCTCAAGGAG
2933988 CAAGACCTATTTCATTCTC
64 CAAGACCTATTTCATTCTC
** * *
2934007 TTTTCCTTTATCCTCAAAAAGTGGGACACCCCTTCCATTTCTTT
1 TTTTCCTTTATCCTCAAAAAGCAGGACA-CCTTTCCTTTTCTTT
2934051 TCCTTCCTAA
Statistics
Matches: 154, Mismatches: 36, Indels: 25
0.72 0.17 0.12
Matches are distributed among these distances:
76 26 0.17
77 11 0.07
78 19 0.12
79 3 0.02
80 4 0.03
81 37 0.24
82 16 0.10
83 38 0.25
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (82 bp):
TTTTCCTTTATCCTCAAAAAGCAGGACACCTTTCCTTTTCTTTCTTCCTTTGTCCTCAAGGAGCA
AGACCTATTTCATTCTC
Found at i:2934676 original size:20 final size:20
Alignment explanation
Indices: 2934624--2934677 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2934614 TCACAATTTA
*
2934624 TATCGATACATTATTCATTG
1 TATCGATACATTGTTCATTG
2934644 TATCGATACATTGTTCATTG
1 TATCGATACATTGTTCATTG
*
2934664 TGTCGATACATTGT
1 TATCGATACATTGT
2934678 ATCAATACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
TATCGATACATTGTTCATTG
Found at i:2937252 original size:51 final size:51
Alignment explanation
Indices: 2937161--2937258 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
2937151 TCCAACCTTG
* * * *
2937161 GTTTTATTTCTAAAACATCAATTTTCAGCAATCGGAGATACTTTAACTCCA
1 GTTTTATTTCCAAAACATCAATTTTCACCAATAGGAGATACTCTAACTCCA
* *
2937212 GTTTTATTTCCAAAACATCGATTTTCCACCATTAGG-GATACTCTAAC
1 GTTTTATTTCCAAAACATCAATTTT-CACCAATAGGAGATACTCTAAC
2937259 CCCGTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 33 0.82
52 7 0.17
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (51 bp):
GTTTTATTTCCAAAACATCAATTTTCACCAATAGGAGATACTCTAACTCCA
Found at i:2937333 original size:51 final size:50
Alignment explanation
Indices: 2937273--2937388 Score: 151
Period size: 50 Copynumber: 2.3 Consensus size: 50
2937263 TTATTTCCAA
* *
2937273 GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCCGATTTTACTTCT-AAACATCAATTTTCCATAATC
* * * * *
2937324 GGGGATACTCCAACTCTGATTTTACTTCTAAATATCAATTTTCCATCATC
1 GGGGATACTCTAACCCCGATTTTACTTCTAAACATCAATTTTCCATAATC
*
2937374 GAGGATACTCTAACC
1 GGGGATACTCTAACC
2937389 TCGTTATTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 30 0.55
51 25 0.45
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.35
Consensus pattern (50 bp):
GGGGATACTCTAACCCCGATTTTACTTCTAAACATCAATTTTCCATAATC
Done.