Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 16 of 23
Found at i:2418746 original size:32 final size:32
Alignment explanation
Indices: 2418705--2418802 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
2418695 AGTAGCTTAA
2418705 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
2418737 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
2418769 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAC-TTATGTATCGATAC
2418802 A
1 A
2418803 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:2421470 original size:51 final size:51
Alignment explanation
Indices: 2421305--2421471 Score: 144
Period size: 50 Copynumber: 3.3 Consensus size: 51
2421295 TAACAACGGG
* * * *
2421305 GCTGGAGTATCCCCTGATCATG-GAAAATCGATATTCTGAAAATAAAATCAGGA
1 GCTGGAGTATCCCC-GATTATGAG-AAATTGATGTTTTGAAAATAAAATC-GGA
* * * * * ** *
2421358 -TTGGAGTATCCCCGATTGTGAAAAATTGATGCTTAG-AAAT-AAGGCTGA
1 GCTGGAGTATCCCCGATTATGAGAAATTGATGTTTTGAAAATAAAATCGGA
* *
2421406 GGTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGAAAATAAAATCGGA
1 -GCTGGAGTATCCCCGATTATGAGAAATTGATGTTTTGAAAATAAAATCGGA
2421458 GCTGGAGTATCCCC
1 GCTGGAGTATCCCC
2421472 TCGAAAAAAA
Statistics
Matches: 88, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
48 2 0.02
49 3 0.03
50 35 0.40
51 31 0.35
52 17 0.19
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GCTGGAGTATCCCCGATTATGAGAAATTGATGTTTTGAAAATAAAATCGGA
Found at i:2421656 original size:51 final size:51
Alignment explanation
Indices: 2421595--2421760 Score: 190
Period size: 51 Copynumber: 3.3 Consensus size: 51
2421585 AAATAACAGG
* *
2421595 GTTGGAGTATCCCCAATTGTGAAAAATT-AGTGTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCAATTGAGAAAAATTGA-TGTTTTGGAAATAAAATCGGA
* * * ** * * *
2421646 GTTGGAGTATCCTCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* * * *
2421697 GTTGGAGTATCCCCAATTAAGAAAAATTGATGTTTTGGAAATAGAACCGGG
1 GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
2421748 GTTGGAGTATCCC
1 GTTGGAGTATCCC
2421761 TGAGATGAAA
Statistics
Matches: 93, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
51 92 0.99
52 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:2424112 original size:20 final size:20
Alignment explanation
Indices: 2424065--2424120 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2424055 AAAATGCCTG
*
2424065 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGTAA
* *
2424085 AATATATCGATACAATG-AGC
1 AATGTATCGATACAATGTA-A
2424105 AATGTATCGATACAAT
1 AATGTATCGATACAAT
2424121 TCGTCCCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGTAA
Found at i:2425087 original size:177 final size:177
Alignment explanation
Indices: 2424773--2425111 Score: 518
Period size: 177 Copynumber: 1.9 Consensus size: 177
2424763 ATTTCTAAAA
* * * **
2424773 TTCCTCTGATCATCCAAAGCGGTGTTAGAAATTTTACATTCTTTCATATTCTCCCGATTCTCTAA
1 TTCCTCTGATCATCCAAAACGGTGTTAGAAATATTAAAAACTTTCATATTCTCCCGATTCTCTAA
** *
2424838 GAGGATATGAAATGTGATTTTGAAAATTTGAGGGTTCAATTGCATTTTTGCATCATAAGTCAATT
66 GAGGATATGAAATGTGATTTTGAAAATTCAAGGGTTCAATTGCATTTTTACATCATAAGTCAATT
2424903 AAAAAATTTAACTCACTTGTTTAGAATATTTTTGAAATATTTTTGCT
131 AAAAAATTTAACTCACTTGTTTAGAATATTTTTGAAATATTTTTGCT
* * * *
2424950 TTCCTTTGATCATCCAAAATGGTGTTAGAAATATTAAAAACTTTCATATTCTCCTGATTTTCT-A
1 TTCCTCTGATCATCCAAAACGGTGTTAGAAATATTAAAAACTTTCATATTCTCCCGATTCTCTAA
* * *
2425014 GAGGGATATGAAATGTGATTTTGAAAATTCAAGGGTTTAATTGCATTTTTACATCATAGGTCACT
66 GA-GGATATGAAATGTGATTTTGAAAATTCAAGGGTTCAATTGCATTTTTACATCATAAGTCAAT
*
2425079 TTAAAAATTTAACTCACTTGTTTAGAATATTTT
130 TAAAAAATTTAACTCACTTGTTTAGAATATTTT
2425112 CAAGTATTTC
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 3 0.02
177 142 0.98
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (177 bp):
TTCCTCTGATCATCCAAAACGGTGTTAGAAATATTAAAAACTTTCATATTCTCCCGATTCTCTAA
GAGGATATGAAATGTGATTTTGAAAATTCAAGGGTTCAATTGCATTTTTACATCATAAGTCAATT
AAAAAATTTAACTCACTTGTTTAGAATATTTTTGAAATATTTTTGCT
Found at i:2426681 original size:48 final size:49
Alignment explanation
Indices: 2426607--2426716 Score: 204
Period size: 48 Copynumber: 2.3 Consensus size: 49
2426597 ATGCCTTCCA
*
2426607 TGTATCGATACAGGATCCCAACGGTCAAAAATTTCAAATTTCTACAATT
1 TGTATCGATACAAGATCCCAACGGTCAAAAATTTCAAATTTCTACAATT
2426656 TGTATCGATACAAG-TCCCAACGGTCAAAAATTTCAAATTTCTACAATT
1 TGTATCGATACAAGATCCCAACGGTCAAAAATTTCAAATTTCTACAATT
2426704 TGTATCGATACAA
1 TGTATCGATACAA
2426717 TTATGAATGT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
48 47 0.78
49 13 0.22
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (49 bp):
TGTATCGATACAAGATCCCAACGGTCAAAAATTTCAAATTTCTACAATT
Found at i:2426729 original size:20 final size:21
Alignment explanation
Indices: 2426704--2426755 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
2426694 TTCTACAATT
*
2426704 TGTATCGATACAATTA-TGAA
1 TGTATCGATACAATCAGTGAA
2426724 TGTATCGATAC-ATCAGTGAA
1 TGTATCGATACAATCAGTGAA
2426744 TGTATCGATACA
1 TGTATCGATACA
2426756 TGTCTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATCAGTGAA
Found at i:2429743 original size:27 final size:26
Alignment explanation
Indices: 2429686--2429743 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
2429676 TTGACAAGTT
* **
2429686 TAAA-AATGGGGTTGGAGTATCCCCT
1 TAAAGAATGGGGTTGGAGTAGCCCAA
2429711 TGAAAGAATGGGGTTGGAGTAGCCCAAA
1 T-AAAGAATGGGGTTGGAGTAGCCC-AA
2429739 TAAAG
1 TAAAG
2429744 GAAATTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 3 0.11
27 22 0.81
28 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (26 bp):
TAAAGAATGGGGTTGGAGTAGCCCAA
Found at i:2431936 original size:51 final size:49
Alignment explanation
Indices: 2431856--2431989 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 49
2431846 ATTTGCCTGC
* *
2431856 ATGTATCGATACATTGAATAATATATCGATACATCTGGGTAAAATA-CCCAG
1 ATGTATCGATACAATG-ATAATGTATCGATACAT-TGGGTAAAA-AGCCCAG
* * * *
2431907 ATGTATCGATACAATGATCAATGTTTCGATACATTTGGTAAAAAGTCTAG
1 ATGTATCGATACAATGAT-AATGTATCGATACATTGGGTAAAAAGCCCAG
* *
2431957 ATGTATTGATATAATGATAAATGTATCGATACA
1 ATGTATCGATACAATGAT-AATGTATCGATACA
2431990 ATGTATCAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
49 1 0.01
50 42 0.59
51 28 0.39
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (49 bp):
ATGTATCGATACAATGATAATGTATCGATACATTGGGTAAAAAGCCCAG
Found at i:2432761 original size:18 final size:17
Alignment explanation
Indices: 2432730--2432763 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2432720 CACTAGACTT
*
2432730 AAAGATGATGAAGATGA
1 AAAGATGATAAAGATGA
2432747 AAAGAGTGATAAAGATG
1 AAAGA-TGATAAAGATG
2432764 CAAATCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (17 bp):
AAAGATGATAAAGATGA
Found at i:2432835 original size:61 final size:61
Alignment explanation
Indices: 2432743--2432876 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 61
2432733 GATGATGAAG
* * * * *
2432743 ATGAAAAGAGTGATAAAGATGCAAATCTGCTGATTCAAGACTAGTGATATTGGGCTTAAAA
1 ATGAGAAGAATGATAAAGATGCAAATCTGCTGATTCAAGACCAGCGATATTAGGCTTAAAA
* * * *
2432804 ATGAGAAGAATGATAAAGGTGCCAA-CATGCTGATTCAAGGCCAGCGATATTAGGCTTAAAG
1 ATGAGAAGAATGATAAAGATGCAAATC-TGCTGATTCAAGACCAGCGATATTAGGCTTAAAA
*
2432865 ATGTGAAGAATG
1 ATGAGAAGAATG
2432877 TCAATATGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
60 1 0.02
61 61 0.98
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (61 bp):
ATGAGAAGAATGATAAAGATGCAAATCTGCTGATTCAAGACCAGCGATATTAGGCTTAAAA
Found at i:2432908 original size:52 final size:52
Alignment explanation
Indices: 2432823--2432999 Score: 158
Period size: 52 Copynumber: 3.4 Consensus size: 52
2432813 ATGATAAAGG
* * * * *
2432823 TGCCAACATGCTGATTCAAGGCCAGCGATATTAGGCTTAAAGATGTGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAAAA
* * * *
2432875 TGTCAATATGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAAAA
* * * ** * * * ** *
2432927 TGCCAATGTACTGATTCAAGGCTAATGACATTGGGCTT-AGGTATGTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAG-ATGAGAAAAA
2432979 TGCCAATATGCTGATTCAAGG
1 TGCCAATATGCTGATTCAAGG
2433000 TGTCGCAACG
Statistics
Matches: 99, Mismatches: 25, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
51 2 0.02
52 97 0.98
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGAAAAA
Found at i:2436267 original size:20 final size:19
Alignment explanation
Indices: 2436238--2436312 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
2436228 AAAAAGACAT
2436238 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
2436257 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
2436278 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
2436298 AATGTATCGATACAT
1 AATGTATCGATACAT
2436313 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:2436285 original size:40 final size:39
Alignment explanation
Indices: 2436235--2436312 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
2436225 GGTAAAAAGA
*
2436235 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2436274 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2436313 CTAGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2436917 original size:28 final size:28
Alignment explanation
Indices: 2436873--2437638 Score: 914
Period size: 28 Copynumber: 26.8 Consensus size: 28
2436863 TAAAAAAAAT
*
2436873 GTGCCACTAACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2436901 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2436928 GGTGCCACTGACTTGCGTGGGCTTTAAAAGG
1 -GTGCCACTGACTT--GTGGGCTTTGAAAGA
2436959 GTGCCACTGACTTGCGTGGGCTTTGAAAGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
* *
2436989 ATGCCACTGACTCGTGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2437016 GATGCCACTGACTTGTGGGCTTTGAAAGT
1 G-TGCCACTGACTTGTGGGCTTTGAAAGA
* **
2437045 GTGCCACTAACTCATGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
2437072 GGTACCACTGACTCGTGGGC-TTGAAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2437100 GTGCCACTAACTTGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2437127 GGTGCCACTGACTCGTGGGCTTTGAAA-A
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2437155 GGTACCACTGACTTGTGTGGGCTTTAAAAGGA
1 -GTGCCACTGAC-T-TGTGGGCTTTGAAA-GA
* *
2437187 GTGCCACTGACTTGTGTGGGATTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
2437217 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * * *
2437245 GTGCCACTGAATTGTGGGCTTCGTAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
2437273 GTGCCACTAACTTGTGGGCTTCGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * * *
2437301 GTGCCACTGACTTTTGGGCTCTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2437329 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
2437357 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
2437386 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
2437415 GCGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
2437444 GTGCCACTAACTTGTGGGCTTTGAAAGAA
1 GTGCCACTGACTTGTGGGCTTTGAAAG-A
*
2437473 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2437501 GTGTCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
2437530 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
2437559 GTGCCACTGAATTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
2437588 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
*
2437617 GTGCCACTGATTTGTGGGCTTT
1 GTGCCACTGACTTGTGGGCTTT
2437639 AAAATGGATG
Statistics
Matches: 653, Mismatches: 68, Indels: 33
0.87 0.09 0.04
Matches are distributed among these distances:
27 23 0.04
28 313 0.48
29 216 0.33
30 75 0.11
31 25 0.04
32 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:2437509 original size:144 final size:143
Alignment explanation
Indices: 2436873--2437638 Score: 994
Period size: 144 Copynumber: 5.3 Consensus size: 143
2436863 TAAAAAAAAT
* *
2436873 GTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTG
1 GTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
* * *
2436938 ACTTGCGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTG-AAAGAATGCCACTGACT
66 ACTT--GTGGGCTTTGAAAAGAGTGCCACTGA-TT-TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
2437001 CGTGGGCTTTGAAAGGA
127 TGTGGGCTTTGAAAAGA
* * * ** * *
2437018 -TGCCACTGACTTGTGGGCTTTGAAAGTGTGCCACTAACTCATGGGCTTTGAAAAGGTACCACTG
1 GTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
* * * * *
2437082 ACTCGTGGGC-TTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAG-GTGCCACTGACTCGTG
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
2437144 GGCTTTGAAAAG-
131 GGCTTTGAAAAGA
* * * *
2437156 GTACCACTGACTTGTGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGATTTGAAAGGGTGC
1 GTGCCACTAAC-T-TGTGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGC
* * * * *
2437221 CACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGAATTGTGGGCTTCG-TAAGGGTGCCACTAAC
61 CACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGAC
* *
2437284 TTGTGGGCTTCG-AAAGG
126 TTGTGGGCTTTGAAAAGA
* * * * * *
2437301 GTGCCACTGACTTTTGGGCTCTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTG
1 GTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
* *
2437366 ACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGCGCCACTGATTTGTG
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
2437431 GGCTTTGAAAAGA
131 GGCTTTGAAAAGA
*
2437444 GTGCCACTAACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACT
1 GTGCCACTAACTTGTGGGCTTTGAAAG-AGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
*
2437509 GACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGT
65 GACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
2437574 GGGCTTTGAAAAGA
130 GGGCTTTGAAAAGA
*
2437588 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTT
1 GTGCCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTT
2437639 AAAATGGATG
Statistics
Matches: 551, Mismatches: 54, Indels: 33
0.86 0.08 0.05
Matches are distributed among these distances:
139 45 0.08
140 44 0.08
141 56 0.10
142 50 0.09
143 40 0.07
144 255 0.46
145 61 0.11
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (143 bp):
GTGCCACTAACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
GGCTTTGAAAAGA
Found at i:2438896 original size:5 final size:5
Alignment explanation
Indices: 2438886--2438916 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
2438876 TTTCTTGGTT
2438886 TTTTG TTTTG TTTTG TTTTG TTTT- TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT
2438917 GTTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:2438906 original size:15 final size:14
Alignment explanation
Indices: 2438886--2438925 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 14
2438876 TTTCTTGGTT
2438886 TTTTGTTTTGTTTTG
1 TTTTGTTTT-TTTTG
2438901 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
2438915 --TTGTTTTTTTT
1 TTTTGTTTTTTTT
2438926 ATAAAAGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.44
14 5 0.20
15 9 0.36
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:2438908 original size:22 final size:21
Alignment explanation
Indices: 2438851--2438925 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
2438841 CATCTAGACC
* *
2438851 TTTTTCTTT-TTTTTCTTTGCTA
1 TTTTT-TTTGTTTTT-TTTGTTG
2438873 TTTTTTCTTGGTTTTTTGTT-TTG
1 TTTTTT-TT-GTTTTTT-TTGTTG
2438896 TTTTGTTTTGTTTTTTTTGTTG
1 TTTT-TTTTGTTTTTTTTGTTG
2438918 TTTTTTTT
1 TTTTTTTT
2438926 ATAAAAGACG
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
21 7 0.16
22 21 0.47
23 8 0.18
24 9 0.20
ACGTcount: A:0.01, C:0.05, G:0.12, T:0.81
Consensus pattern (21 bp):
TTTTTTTTGTTTTTTTTGTTG
Found at i:2438921 original size:10 final size:9
Alignment explanation
Indices: 2438884--2438925 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2438874 TTTTTCTTGG
2438884 TTTTTTGTT
1 TTTTTTGTT
2438893 TTGTTTTGTT
1 TT-TTTTGTT
*
2438903 TTGTTT-TT
1 TTTTTTGTT
*
2438911 TTTGTTGTT
1 TTTTTTGTT
2438920 TTTTTT
1 TTTTTT
2438926 ATAAAAGACG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 12 0.44
10 9 0.33
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:2453347 original size:20 final size:20
Alignment explanation
Indices: 2453300--2453374 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
2453290 AAGAAGACAT
*
2453300 AATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
*
2453319 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2453340 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
2453360 AATGTATCGAAACAT
1 AATGTATCGATACAT
2453375 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 43 0.98
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2453357 original size:40 final size:39
Alignment explanation
Indices: 2453297--2453374 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2453287 GGTAAGAAGA
* *
2453297 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGAAACATT
* *
2453336 CATACATGTATCGATATATTGAAAAATGTATCGAAACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGAAACAT
2453375 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGAAACATT
Found at i:2453645 original size:49 final size:49
Alignment explanation
Indices: 2453573--2453846 Score: 300
Period size: 49 Copynumber: 5.5 Consensus size: 49
2453563 GGTGTCTACA
* **
2453573 CAAGGCCAGCGATATCAGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* *
2453622 CAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* *
2453671 CAAGGCCAACGACATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* * * *
2453720 CAAGGCCAGCAACATTAGG-CTTAGGAATATTGAAGATGCCAATATGCTGATT
1 CAAGGCCAGCGACATT-GGACTTA--AAGA-TGAAGGTGCCAATGTGCTGATT
* * * *
2453772 CAAGGCCAGCGATATT-AAGCTTAAAGATGACAAAAGTGCCAATGTGTTGATT
1 CAAGGCCAGCGACATTGGA-CTTAAAGATG---AAGGTGCCAATGTGCTGATT
* * *
2453824 CAAGGCCAACGAAATTGGGCTTA
1 CAAGGCCAGCGACATTGGACTTA
2453847 GAAGTAGATG
Statistics
Matches: 188, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
49 109 0.58
50 4 0.02
51 3 0.02
52 72 0.38
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (49 bp):
CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
Found at i:2453874 original size:31 final size:31
Alignment explanation
Indices: 2453839--2453932 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
2453829 CCAACGAAAT
*
2453839 TGGGCTTAG-AAGTAGATGCCACCGACTTTTG
1 TGGGCTTAGAAAG-AGATGCCACCGACTTGTG
* * *
2453870 TGGGCTTTTGAAAGGGTTGCCACCGACTTGTG
1 TGGGC-TTAGAAAGAGATGCCACCGACTTGTG
* * *
2453902 TGGGCTTTGAAA-AGGGTGCCACGGACTTGTG
1 TGGGCTTAGAAAGA-GATGCCACCGACTTGTG
2453933 GACTTAAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
31 27 0.51
32 23 0.43
33 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (31 bp):
TGGGCTTAGAAAGAGATGCCACCGACTTGTG
Found at i:2453893 original size:32 final size:31
Alignment explanation
Indices: 2453855--2453932 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
2453845 TAGAAGTAGA
*
2453855 TGCCACCGACTTTTGTGGGCTTTTG-AAAGGG
1 TGCCACCGACTTGTGTGGGC-TTTGAAAAGGG
2453886 TTGCCACCGACTTGTGTGGGCTTTGAAAAGGG
1 -TGCCACCGACTTGTGTGGGCTTTGAAAAGGG
*
2453918 TGCCACGGACTTGTG
1 TGCCACCGACTTGTG
2453933 GACTTAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 18 0.42
32 25 0.58
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (31 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAAGGG
Found at i:2453942 original size:27 final size:27
Alignment explanation
Indices: 2453911--2454080 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
2453901 GTGGGCTTTG
* * *
2453911 AAAAGGGTGCCACGGACTTGTGGACTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
* *
2453938 AAAAGGATGCTACAGAGTCGTGGACTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
* * * *
2453965 AAAAAGGTACCACAGAGTCTTGGGCTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
*
2453992 AAAAAGGTGCCACAGAGTCGTTGG-CTT
1 AAAAGGGTGCCACAGAGTCG-TGGACTT
*
2454019 AAAAGGGTACCACAGAGTCGTGGACTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
* * * *
2454046 AAAA-GGTGTCACGGAATCGTGGGCTT
1 AAAAGGGTGCCACAGAGTCGTGGACTT
2454072 AAAAGGGTG
1 AAAAGGGTG
2454081 AGGAGTGCCT
Statistics
Matches: 120, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.20
27 93 0.77
28 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTCGTGGACTT
Found at i:2466696 original size:217 final size:217
Alignment explanation
Indices: 2466321--2466748 Score: 721
Period size: 217 Copynumber: 2.0 Consensus size: 217
2466311 CAAGTAAGAC
*
2466321 CATTTTGGTTTGAAAGTCAGAATTTTAGACTTGTTTTAATCATGATTCCAGACCTGGAAATTAAA
1 CATTTTGGTTTGAAAGTCAGAATTTCAGACTTGTTTTAATCATGATTCCAGACCTGGAAATTAAA
* **
2466386 TTTTCCCCAAGATTATAATGATTGCTTATTAAAATGTTAAATCCATGCTAATCCTCATTGCTTGA
66 TTTACCCCAAGATTATAATGATTGCTTATTAAAACATTAAATCCATGCTAATCCTCATTGCTTGA
* *
2466451 GGTTAGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTGTTTTAAGACAAATAAGCATGCATT
131 GGTTAGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTATTTTAAGACAAACAAGCATGCATT
*
2466516 TTTTACAAGGAAAATGCTCATG
196 TTTGACAAGGAAAATGCTCATG
* * * *
2466538 CATTTTGGTTTGAAAGTCGGAATTTCATACTTGTTTTAATCATGATTTCAGACCTGGGAATTAAA
1 CATTTTGGTTTGAAAGTCAGAATTTCAGACTTGTTTTAATCATGATTCCAGACCTGGAAATTAAA
*
2466603 TTTACCCCAAGATTATAATGGTTGCTTATTAAAACATTAAATCCATGCTAATCCTCATTGCTTGA
66 TTTACCCCAAGATTATAATGATTGCTTATTAAAACATTAAATCCATGCTAATCCTCATTGCTTGA
* **
2466668 GGTTTGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTATTTTAAGGTAAACAAGCATGCATT
131 GGTTAGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTATTTTAAGACAAACAAGCATGCATT
2466733 TTTGACAAGGAAAATG
196 TTTGACAAGGAAAATG
2466749 GGATGCTCAT
Statistics
Matches: 196, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 196 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (217 bp):
CATTTTGGTTTGAAAGTCAGAATTTCAGACTTGTTTTAATCATGATTCCAGACCTGGAAATTAAA
TTTACCCCAAGATTATAATGATTGCTTATTAAAACATTAAATCCATGCTAATCCTCATTGCTTGA
GGTTAGCTTGAACTTAACTTGGGGAGGTGTTTGAAAATCTATTTTAAGACAAACAAGCATGCATT
TTTGACAAGGAAAATGCTCATG
Found at i:2466903 original size:8 final size:8
Alignment explanation
Indices: 2466890--2466914 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2466880 CGCACAAACA
2466890 ACATCAAG
1 ACATCAAG
2466898 ACATCAAG
1 ACATCAAG
2466906 ACATCAAG
1 ACATCAAG
2466914 A
1 A
2466915 TAATCCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (8 bp):
ACATCAAG
Found at i:2467046 original size:23 final size:23
Alignment explanation
Indices: 2467017--2467070 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
2467007 AACACATAAA
2467017 CAGAAAATGAAAGTGTCAAAGTC
1 CAGAAAATGAAAGTGTCAAAGTC
2467040 CAGAAAATGAAAGTGTCAAAGTC
1 CAGAAAATGAAAGTGTCAAAGTC
2467063 CAGAAAAT
1 CAGAAAAT
2467071 ATACCAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (23 bp):
CAGAAAATGAAAGTGTCAAAGTC
Found at i:2467824 original size:50 final size:51
Alignment explanation
Indices: 2467729--2467848 Score: 188
Period size: 50 Copynumber: 2.4 Consensus size: 51
2467719 CATACATTTT
* *
2467729 TCAATGTATCGATACATTTGGGTAAAATACCCAGATGTATCGATACAATGA
1 TCAATGTATCGATACATTTGGGTAAAAAACCCAGATATATCGATACAATGA
*
2467780 TCAATGTATCGATACATTT-GGTAAAAAATCCAGATATATCGATACAATGA
1 TCAATGTATCGATACATTTGGGTAAAAAACCCAGATATATCGATACAATGA
* *
2467830 TAAATGTATTGATACATTT
1 TCAATGTATCGATACATTT
2467849 ATTAATGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
50 45 0.70
51 19 0.30
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (51 bp):
TCAATGTATCGATACATTTGGGTAAAAAACCCAGATATATCGATACAATGA
Found at i:2470308 original size:78 final size:78
Alignment explanation
Indices: 2470136--2470543 Score: 484
Period size: 79 Copynumber: 5.2 Consensus size: 78
2470126 AAATATCGAT
* **
2470136 TTTTCATCTC-AGGGATATTCCAACCTCGTTATTTTCGAGGGGATACTTTAACCCCATTTTTA-T
1 TTTTCATCTCGA-GGATACTCCAACC-CGTTATTTTCGAGGGGATACTCCAACCCCATTTTTATT
2470199 TTCGAAAATATTAAAA
64 TTC-AAAATATTAAAA
* * * * * * *
2470215 TTTTCATCTCAAGGATACTCCGATCCCATCAATTTCGAGGGGATACTCTAA-CCTATTTTTATTT
1 TTTTCATCTCGAGGATACTCC-AACCCGTTATTTTCGAGGGGATACTCCAACCCCATTTTTATTT
*
2470279 TCAAAATATTAAAC
65 TCAAAATATTAAAA
2470293 TTTTCATCTCGAGGATACTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCC-TTGTTTATT
1 TTTTCATCTCGAGGATACTCCAAC-CCGTTATTTTCGAGGGGATACTCCAACCCCATT-TTTATT
*
2470357 TTCAAAATACTAAAA
64 TTCAAAATATTAAAA
* **
2470372 TTTTCATCTAGAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGCTTTTATTT
1 TTTTCATCTCGAGGATACTCCAACCC-GTTATTTTCGAGGGGATACTCCAACCCCATTTTTATTT
* * * *
2470437 CCCAAATAATAAAT
65 TCAAAATATTAAAA
* * * * *
2470451 TTTTCATCT-TAGGGATACTCCAACCTCGTTATTTTTGAAGGGATACTCCAACCCCGTTTTCATT
1 TTTTCATCTCGA-GGATACTCCAACC-CGTTATTTTCGAGGGGATACTCCAACCCCATTTTTATT
2470515 TTCAAAATATTAAAA
64 TTCAAAATATTAAAA
2470530 TTTTCATCTCGAGG
1 TTTTCATCTCGAGG
2470544 CTCCCCCAAC
Statistics
Matches: 285, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
77 2 0.01
78 67 0.24
79 209 0.73
80 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (78 bp):
TTTTCATCTCGAGGATACTCCAACCCGTTATTTTCGAGGGGATACTCCAACCCCATTTTTATTTT
CAAAATATTAAAA
Found at i:2470616 original size:50 final size:48
Alignment explanation
Indices: 2470490--2470666 Score: 192
Period size: 51 Copynumber: 3.5 Consensus size: 48
2470480 TATTTTTGAA
*
2470490 GGGATACTCCAACCCCGTTTTCATTTTCAAAATATTAAAATTTTCATCTCG
1 GGGATACTCCAA-CCC-TTTT-ATTTTCAAAATATTAAATTTTTCATCTCG
* * * * *
2470541 AGGCTCCCCCAACCACGTTTTTATTTTCAAAATATTAAATTTTTCATCTTG
1 GGGATACTCCAACC-C--TTTTATTTTCAAAATATTAAATTTTTCATCTCG
* *
2470592 GGGATACTCCAATCCCATTTTATTTCCAAAATATTAAATTTTTTATCTCG
1 GGGATACTCCAA-CCC-TTTTATTTTCAAAATATTAAATTTTTCATCTCG
* *
2470642 GGGATACTCTAACCCTGTTATTTTC
1 GGGATACTCCAACCCTTTTATTTTC
2470667 GAGGGGATAC
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
48 8 0.08
49 3 0.03
50 43 0.41
51 45 0.43
52 6 0.06
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (48 bp):
GGGATACTCCAACCCTTTTATTTTCAAAATATTAAATTTTTCATCTCG
Found at i:2470708 original size:79 final size:78
Alignment explanation
Indices: 2470591--2470887 Score: 287
Period size: 79 Copynumber: 3.8 Consensus size: 78
2470581 TTTTCATCTT
* *
2470591 GGGGATACTCCAATCCCA-TTTTATTTCCAAAATATTAAATTTTTTATCTCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAAC
* * *
2470655 CCTGTTATTTTCGA
66 CC-ATCAATTTCGA
* ** *
2470669 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATCT-TAGGATACTCGAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAAC
* *
2470733 CCATCAATTCCTA
66 CCATCAATTTCGA
* ** * * * * * *
2470746 AGGGATACTCCAACCCTGTTTTTATTTTCAAAATATTAAGTGTTTCATTTTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAA-
2470811 CCCATCAATTTCGTA
65 CCCATCAATTTCG-A
* * *** * **
2470826 -AGGATACTCTAACCCTGCTCTTATTTCCAAAATGCTAAATTTTTCATCTC-GGGATACTCTAA
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAA
2470888 TCCCGTATTC
Statistics
Matches: 179, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
77 48 0.27
78 51 0.28
79 79 0.44
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (78 bp):
GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCTAAC
CCATCAATTTCGA
Found at i:2472796 original size:67 final size:67
Alignment explanation
Indices: 2472688--2472822 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
2472678 AATAAATTAG
*
2472688 TGGCGACTCCAAATAAATGGTCATTTCGTAATGACTATTTAAGGTTAAGTCAAATGAGCGATTCA
1 TGGCGACTCCAAACAAATGGTCATTTCGTAATGACTATTTAAGGTTAAGTCAAATGAGCGATTCA
2472753 CC
66 CC
*
2472755 TGGCGACTCCAAACAAATGGTCATTTCGTAATGACTATTTAAGGTTAAGTCAAATGAGCGTTTCA
1 TGGCGACTCCAAACAAATGGTCATTTCGTAATGACTATTTAAGGTTAAGTCAAATGAGCGATTCA
2472820 CC
66 CC
2472822 T
1 T
2472823 CGATGACCCG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (67 bp):
TGGCGACTCCAAACAAATGGTCATTTCGTAATGACTATTTAAGGTTAAGTCAAATGAGCGATTCA
CC
Found at i:2473825 original size:153 final size:154
Alignment explanation
Indices: 2473650--2473940 Score: 388
Period size: 154 Copynumber: 1.9 Consensus size: 154
2473640 GATGAATTTT
* * * * * *
2473650 AAAATCCAATTGGAGAAATTTACGGAGCAGAAAATTCTGTATCTT-GGTATTA-AAAAAATTCTA
1 AAAATCCAACTGGAGAAATTTACGAAGCAGAAAACTCCGTAT-TTCAGTAATAGAAAAAATTCTA
* * * * *
2473713 AAACTTATACAATAAATTGAATTTTGCAAAATTGATTTAACATGAGTTAAAAAATAATATTTGAA
65 AAACTCATAAAATAAATTGAATTTTGCAAAACTGATTTAACATGAATTAAAAAATAATATTTAAA
2473778 GAATTTTAAAAATTATAAACTTAAA
130 GAATTTTAAAAATTATAAACTTAAA
* * *
2473803 AAAATCCTACTGGAGAAATTTACGAAGTAGAAAACTCCGTATTTCAGTAATAGGAAAAATTCTAA
1 AAAATCCAACTGGAGAAATTTACGAAGCAGAAAACTCCGTATTTCAGTAATAGAAAAAATTCTAA
* * * * *
2473868 AAGTCATAAAATAAATTTAATTTTTCAAAACTGATTTAATATGAATTAAACAATAATATTTAAAG
66 AACTCATAAAATAAATTGAATTTTGCAAAACTGATTTAACATGAATTAAAAAATAATATTTAAAG
2473933 AATTTTAA
131 AATTTTAA
2473941 TAAACTTAGA
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
152 2 0.02
153 41 0.35
154 74 0.63
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (154 bp):
AAAATCCAACTGGAGAAATTTACGAAGCAGAAAACTCCGTATTTCAGTAATAGAAAAAATTCTAA
AACTCATAAAATAAATTGAATTTTGCAAAACTGATTTAACATGAATTAAAAAATAATATTTAAAG
AATTTTAAAAATTATAAACTTAAA
Found at i:2475192 original size:65 final size:62
Alignment explanation
Indices: 2474910--2475477 Score: 251
Period size: 65 Copynumber: 8.9 Consensus size: 62
2474900 CTAGAGTGAG
* * * * * *
2474910 ACCTAAGTCAAAAAAAAGTTGACCAGGGCAAAACCATAACGTTAACTAAAAAGTGACTAGGGCAA
1 ACCTAAGTC-GAAAAAAGTTGACTAGGGCGAAACCATCACGTCAAC--AAAAGTGAC-AAGGCAA
2474975 A
62 A
* * * * *
2474976 ACCCAAGTCGAAAAGAAATTGACTAGGGCGAAACCATCACGTCAATAAAGAGTGACCAGGGTGAA
1 ACCTAAGTCGAAAA-AAGTTGACTAGGGCGAAACCATCACGTCAACAAA-AGTGA-CAAGG-CAA
2475041 A
62 A
* * * ** * * *
2475042 A-CTAAGTTGAAAAGAGATTGACCAAAGCGAAACCATTACATCAACAAAGAGTGACAAGGGTAAA
1 ACCTAAGTCGAAAAAAG-TTGACTAGGGCGAAACCATCACGTCAACAAA-AGTGACAA-GGCAAA
* * *
2475106 ATCTAAGTCGAAAAGAAGTTGACTAGGACGAAACCATCATGTCAACAAAATGTGATCAAGGCAAA
1 ACCTAAGTCGAAAA-AAGTTGACTAGGGCGAAACCATCACGTCAACAAAA-GTGA-CAAGGCAAA
* * * * * *
2475171 ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAAACCATCATGCCAACTAAAATATGACTAGGGCGA
1 ACCTAAGTCGAAAAAA-GTTGACTAGGGCGAAACCATCACGTCAAC-AAAA-GTGAC-AAGGCAA
2475236 A
62 A
* * * * * * * ** *** * **
2475237 A-C--A--C---AAAGGATGACCAAGGAGAAA-C-TGAGGTCGAAAAGAGGTTAACCAAGGTGAA
1 ACCTAAGTCGAAAAAAGTTGACTAGGGCGAAACCATCACGTC--AACAAAAGTGA-CAAGGCAAA
* * * * *
2475292 ACCTTAGGTCGAAAAGAGGTTGACTAGGGCAAAACCATCACGTCAACAAAGGATGACCAGGGCAA
1 ACC-TAAGTCGAAAA-AAGTTGACTAGGGCGAAACCATCACGTCAACAAAAG-TGA-CAAGGCAA
2475357 A
62 A
* * * * * * * *
2475358 ACCTAGGTC-AAAAAGAGGTGACCAGGGCGAAACCATCACATTAACAAAGGATGACCAAAGTAAA
1 ACCTAAGTCGAAAAA-AGTTGACTAGGGCGAAACCATCACGTCAACAAAAG-TGA-CAAGGCAAA
* * *
2475422 ACCTAAGTCGAAAACAAGTTGACCAGGGCAAAACCATCACGTTAACAAAAGATGAC
1 ACCTAAGTCGAAAA-AAGTTGACTAGGGCGAAACCATCACGTCAACAAAAG-TGAC
2475478 TAGGGCGAAA
Statistics
Matches: 385, Mismatches: 85, Indels: 66
0.72 0.16 0.12
Matches are distributed among these distances:
55 13 0.03
56 4 0.01
57 13 0.03
58 3 0.01
61 2 0.01
63 2 0.01
64 68 0.18
65 203 0.53
66 72 0.19
67 5 0.01
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (62 bp):
ACCTAAGTCGAAAAAAGTTGACTAGGGCGAAACCATCACGTCAACAAAAGTGACAAGGCAAA
Found at i:2475201 original size:32 final size:32
Alignment explanation
Indices: 2474910--2475205 Score: 87
Period size: 32 Copynumber: 9.1 Consensus size: 32
2474900 CTAGAGTGAG
* * *
2474910 ACCTAAGTCAAAAAAAAGTTGACCAGGGCAAA
1 ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAA
* *
2474942 ACCATAACGT-TAACTAAAAAG-TGACTAGGGCAAA
1 ACC-TAA-GTCGAA--AAAAGGTTGACTAGGGCAAA
* * *
2474976 ACCCAAGTCGAAAAGAA-ATTGACTAGGGCGAA
1 ACCTAAGTCGAAAA-AAGGTTGACTAGGGCAAA
* * * *
2475008 ACCATCACGTC-AATAAAGAG-TGACCAGGGTGAAA
1 ACC-T-AAGTCGAAAAAAG-GTTGACTAGGG-CAAA
* * * * ** *
2475042 A-CTAAGTTGAAAAGAGATTGACCAAAGCGAA
1 ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAA
* * *
2475073 ACCATTACA-TC-AACAAAGAG-TGACAAGGGTAAA
1 ACC--TA-AGTCGAAAAAAG-GTTGACTAGGGCAAA
* * *
2475106 ATCTAAGTCGAAAAGAA-GTTGACTAGGACGAA
1 ACCTAAGTCGAAAA-AAGGTTGACTAGGGCAAA
* * *
2475138 ACCATCATGTC-AACAAAATG-TGA-TCAAGGCAAA
1 ACC-T-AAGTCGAA-AAAAGGTTGACT-AGGGCAAA
2475171 ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAA
1 ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAA
2475203 ACC
1 ACC
2475206 ATCATGCCAA
Statistics
Matches: 188, Mismatches: 45, Indels: 62
0.64 0.15 0.21
Matches are distributed among these distances:
30 1 0.01
31 22 0.12
32 69 0.37
33 55 0.29
34 34 0.18
35 7 0.04
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (32 bp):
ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAA
Found at i:2475205 original size:130 final size:132
Alignment explanation
Indices: 2474910--2475207 Score: 343
Period size: 130 Copynumber: 2.3 Consensus size: 132
2474900 CTAGAGTGAG
* * * * *
2474910 ACCTAAGTCAAAAAAAAGTTGACCAGGGCAAAACCATAACGTTAACTAAAAAGTGACTAGGGCAA
1 ACCTAAGTCGAAAAAAGGTTGACCAGGGCAAAACCATAACATCAACTAAAAAGTGACAAGGGCAA
* * * *
2474975 AACCCAAGTCGAAAAGAAATTGACTAGGGCGAAACCATCACGTCAATAAAGAGTGACCAGGGTGA
66 AACCCAAGTCGAAAAGAAATTGACTAGGACGAAACCATCACGTCAACAAAGAGTGACCAAGGTCA
2475040 AA
131 AA
* * * ** * * * *
2475042 A-CTAAGTTGAAAAGAGATTGACCAAAGCGAAACCATTACATCAAC-AAAGAGTGACAAGGGTAA
1 ACCTAAGTCGAAAAAAGGTTGACCAGGGCAAAACCATAACATCAACTAAAAAGTGACAAGGGCAA
* * * * *
2475105 AATCTAAGTCGAAAAGAAGTTGACTAGGACGAAACCATCATGTCAACAAA-ATGTGATCAAGG-C
66 AACCCAAGTCGAAAAGAAATTGACTAGGACGAAACCATCACGTCAACAAAGA-GTGACCAAGGTC
2475168 AAA
130 AAA
*
2475171 ACCTAAGTCGAAAAAAGGTTGACTAGGGCAAAACCAT
1 ACCTAAGTCGAAAAAAGGTTGACCAGGGCAAAACCAT
2475208 CATGCCAACT
Statistics
Matches: 134, Mismatches: 30, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
129 5 0.04
130 95 0.71
131 33 0.25
132 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (132 bp):
ACCTAAGTCGAAAAAAGGTTGACCAGGGCAAAACCATAACATCAACTAAAAAGTGACAAGGGCAA
AACCCAAGTCGAAAAGAAATTGACTAGGACGAAACCATCACGTCAACAAAGAGTGACCAAGGTCA
AA
Found at i:2475285 original size:32 final size:33
Alignment explanation
Indices: 2475249--2475312 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2475239 ACAAAGGATG
2475249 ACCAAGGAGAAA-CTGAGGTCGAAAAGAGGTTA
1 ACCAAGGAGAAACCTGAGGTCGAAAAGAGGTTA
* *
2475281 ACCAAGGTGAAACCTTAGGTCGAAAAGAGGTT
1 ACCAAGGAGAAACCTGAGGTCGAAAAGAGGTT
2475313 GACTAGGGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.16
Consensus pattern (33 bp):
ACCAAGGAGAAACCTGAGGTCGAAAAGAGGTTA
Found at i:2475327 original size:33 final size:33
Alignment explanation
Indices: 2475264--2475391 Score: 120
Period size: 33 Copynumber: 3.9 Consensus size: 33
2475254 GGAGAAACTG
* * **
2475264 AGGTCGAAAAGAGGTTAACCAAGGTGAAACCTT
1 AGGTCGAAAAGAGGTTGACCAGGGCAAAACCTT
* *
2475297 AGGTCGAAAAGAGGTTGACTAGGGCAAAACCATC
1 AGGTCGAAAAGAGGTTGACCAGGGCAAAACC-TT
* *
2475331 ACGTC-AACAA-AGGATGACCAGGGCAAAACC-T
1 AGGTCGAA-AAGAGGTTGACCAGGGCAAAACCTT
* *
2475362 AGGTCAAAAAGAGG-TGACCAGGGCGAAACC
1 AGGTCGAAAAGAGGTTGACCAGGGCAAAACC
2475392 ATCACATTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
31 21 0.27
32 5 0.06
33 46 0.58
34 7 0.09
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (33 bp):
AGGTCGAAAAGAGGTTGACCAGGGCAAAACCTT
Found at i:2475380 original size:31 final size:32
Alignment explanation
Indices: 2475290--2475393 Score: 113
Period size: 31 Copynumber: 3.2 Consensus size: 32
2475280 AACCAAGGTG
* * *
2475290 AAACCTTAGGTCGAAAAGAGGTTGACTAGGGCA
1 AAACCATAGGTCAAAAAGAGG-TGACCAGGGCA
* *
2475323 AAACCATCACGTCAACAAAG-GATGACCAGGGCA
1 AAACCAT-AGGTCAA-AAAGAGGTGACCAGGGCA
*
2475356 AAACC-TAGGTCAAAAAGAGGTGACCAGGGCG
1 AAACCATAGGTCAAAAAGAGGTGACCAGGGCA
2475387 AAACCAT
1 AAACCAT
2475394 CACATTAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
30 4 0.07
31 22 0.37
32 2 0.03
33 21 0.36
34 6 0.10
35 4 0.07
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.12
Consensus pattern (32 bp):
AAACCATAGGTCAAAAAGAGGTGACCAGGGCA
Found at i:2475434 original size:162 final size:162
Alignment explanation
Indices: 2475239--2475557 Score: 344
Period size: 162 Copynumber: 2.0 Consensus size: 162
2475229 AGGGCGAAAC
* * * ** * *
2475239 ACAAAGGATGACCAAGGAGAAACTGAGGTCGAAAAGAGGTTAACCAAGGTGAAACC-TTAGGTCG
1 ACAAAGGATGACCAAGGAGAAACTGAAGTCGAAAACAAGTTAACCAAGGCAAAACCATCACGT-G
* * *
2475303 AA-AAGAGGTTGACTAGGGCAAAACCATCACGTCAACAAAGGATGACCAGGGCAAAACCTAGGTC
65 AACAA-AAGATGACTAGGGCAAAACCATCACGTCAACAAA-GATGACCAGGGCAAAACCTAAGTC
2475367 AAAAAG-AGGTGACCAGGGCGA-AACCATCACATTA
128 AAAAAGAAGGTGACCAGGGC-ACAACCATCACATTA
* * *
2475401 ACAAAGGATGACCAAAGTA-AAACCT-AAGTCGAAAACAAGTTGACCAGGGCAAAACCATCACGT
1 ACAAAGGATGACC-AAGGAGAAA-CTGAAGTCGAAAACAAGTTAACCAAGGCAAAACCATCACGT
* * * * * * **
2475464 TAACAAAAGATGACTAGGGCGAAACCATCACGTCAACAAATATGACTAGGGTAGAACCTAAGTTG
64 GAACAAAAGATGACTAGGGCAAAACCATCACGTCAACAAAGATGACCAGGGCAAAACCTAAGTCA
*
2475529 AAAAGAAGTTGACCAGGGCACAACCATCA
129 AAAAGAAGGTGACCAGGGCACAACCATCA
2475558 TGTTAATAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
161 24 0.19
162 93 0.72
163 12 0.09
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (162 bp):
ACAAAGGATGACCAAGGAGAAACTGAAGTCGAAAACAAGTTAACCAAGGCAAAACCATCACGTGA
ACAAAAGATGACTAGGGCAAAACCATCACGTCAACAAAGATGACCAGGGCAAAACCTAAGTCAAA
AAGAAGGTGACCAGGGCACAACCATCACATTA
Found at i:2475538 original size:97 final size:97
Alignment explanation
Indices: 2475345--2475586 Score: 292
Period size: 97 Copynumber: 2.5 Consensus size: 97
2475335 CAACAAAGGA
* * * *
2475345 TGACCAGGGCAAAACC-T-AGGTCAAAAAGAGGTGACCAGGGCGAAACCATCACATTAACAAAGG
1 TGACCAGGGCAAAACCATCACGTTAAAAA-AGGTGACTAGGGCGAAACCATCACATCAACAAAGG
2475408 ATGACCAAAGTAAAACCTAAGTCGAAAACAAGT
65 ATGACCAAAGTAAAACCTAAGTCGAAAACAAGT
* * *
2475441 TGACCAGGGCAAAACCATCACGTTAACAAAAGATGACTAGGGCGAAACCATCACGTCAACAAA-T
1 TGACCAGGGCAAAACCATCACGTTAA-AAAAGGTGACTAGGGCGAAACCATCACATCAACAAAGG
* ** * * *
2475505 ATGACTAGGGTAGAACCTAAGTTGAAAAGAAGT
65 ATGACCAAAGTAAAACCTAAGTCGAAAACAAGT
* * *
2475538 TGACCAGGGCACAACCATCATGTTAATAAAAGGTGACTAAGGCGAAACC
1 TGACCAGGGCAAAACCATCACGTTAA-AAAAGGTGACTAGGGCGAAACC
2475587 TAAGTCTAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
96 16 0.13
97 72 0.58
98 34 0.27
99 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (97 bp):
TGACCAGGGCAAAACCATCACGTTAAAAAAGGTGACTAGGGCGAAACCATCACATCAACAAAGGA
TGACCAAAGTAAAACCTAAGTCGAAAACAAGT
Found at i:2475588 original size:162 final size:163
Alignment explanation
Indices: 2475312--2475633 Score: 391
Period size: 162 Copynumber: 2.0 Consensus size: 163
2475302 GAAAAGAGGT
*
2475312 TGACTAGGGCAAAACCATCACGTCAACAAAGGATGACCAGGGCAAAACCTAGGTCAAAAAGAGGT
1 TGACTAGGGCAAAACCATCACGTCAACAAAGGATGACCAGGGCAAAACCTAAGTCAAAAAGAGGT
* * *
2475377 GACCAGGGCGAAACCATCACATTAACAAAGGATGACCAAAGTAAAACCTAAGTCGAAAACAAGTT
66 GACCAGGGCGAAACCATCACATTAAAAAAGGATGACCAAAGCAAAACCTAAGTCGAAAAAAAGTT
* *
2475442 GACC-AGGGCAAAACCATCACGTTAACAAAAGA
131 GACCTAGGGCAAAACCATCACATCAACAAAAGA
* * * * * ** *
2475474 TGACTAGGGCGAAACCATCACGTCAACAAA-TATGACTAGGGTAGAACCTAAGTTGAAAAGAAGT
1 TGACTAGGGCAAAACCATCACGTCAACAAAGGATGACCAGGGCAAAACCTAAGTCAAAAAG-AGG
** * * * *
2475538 TGACCAGGGC-ACAACCATCATGTTAATAAAAGG-TGACTAAGGCGAAACCTAAGTCTAAAAAAA
65 TGACCAGGGCGA-AACCATCACATTAA-AAAAGGATGACCAAAGCAAAACCTAAGTCGAAAAAAA
**
2475601 GTTGACCTAGGGTGAAACCATCACATCAACAAA
128 GTTGACCTAGGGCAAAACCATCACATCAACAAA
2475634 GGGTGAGCAA
Statistics
Matches: 134, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
161 24 0.18
162 84 0.63
163 26 0.19
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (163 bp):
TGACTAGGGCAAAACCATCACGTCAACAAAGGATGACCAGGGCAAAACCTAAGTCAAAAAGAGGT
GACCAGGGCGAAACCATCACATTAAAAAAGGATGACCAAAGCAAAACCTAAGTCGAAAAAAAGTT
GACCTAGGGCAAAACCATCACATCAACAAAAGA
Found at i:2475589 original size:65 final size:65
Alignment explanation
Indices: 2475518--2475674 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 65
2475508 ACTAGGGTAG
** * *
2475518 AACCTAAGT-TGAAAAGAAGTTGACCAGGG-CACAACCATCATGTTAATAAAAGGTGA-CTAAGG
1 AACCTAAGTCT-AAAAGAAGTTGACCAGGGTCA-AACCATCACATCAACAAAAGGTGAGC-AAGG
2475580 CGA
63 CGA
* * *
2475583 AACCTAAGTCTAAAAAAAGTTGACCTAGGGTGAAACCATCACATCAACAAAGGGTGAGCAAGGCG
1 AACCTAAGTCTAAAAGAAGTTGACC-AGGGTCAAACCATCACATCAACAAAAGGTGAGCAAGGCG
2475648 A
65 A
* *
2475649 AACCTATGTCTAAAAGAAATTGACCA
1 AACCTAAGTCTAAAAGAAGTTGACCA
2475675 AAGTGAAACC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
65 23 0.29
66 53 0.68
67 2 0.03
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (65 bp):
AACCTAAGTCTAAAAGAAGTTGACCAGGGTCAAACCATCACATCAACAAAAGGTGAGCAAGGCGA
Found at i:2475601 original size:32 final size:32
Alignment explanation
Indices: 2475518--2475718 Score: 108
Period size: 33 Copynumber: 6.1 Consensus size: 32
2475508 ACTAGGGTAG
* *
2475518 AACCTAAGT-TGAAAAGAAGTTGACCAGGGC-A
1 AACCTAAGTCT-AAAAAAAGTTGACCAAGGCGA
* * * *
2475549 CAACCATCATGT-TAATAAAAGGTGACTAAGGCGA
1 -AACC-T-AAGTCTAAAAAAAGTTGACCAAGGCGA
* *
2475583 AACCTAAGTCTAAAAAAAGTTGACCTAGGGTGA
1 AACCTAAGTCTAAAAAAAGTTGACC-AAGGCGA
* * * *
2475616 AACCATCACA-TC-AACAAAGGGTGAGCAAGGCGA
1 AACC-T-A-AGTCTAAAAAAAGTTGACCAAGGCGA
* * *
2475649 AACCTATGTCTAAAAGAAA-TTGACCAAAGTGA
1 AACCTAAGTCTAAAA-AAAGTTGACCAAGGCGA
**
2475681 AACCTAAGTAAAAAAAAAAAGTTGACCAAGGCGA
1 AACCTAAGT--CTAAAAAAAGTTGACCAAGGCGA
2475715 AACC
1 AACC
2475719 ACTACGTCAA
Statistics
Matches: 125, Mismatches: 30, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
31 6 0.05
32 38 0.30
33 42 0.34
34 35 0.28
35 3 0.02
36 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (32 bp):
AACCTAAGTCTAAAAAAAGTTGACCAAGGCGA
Found at i:2475889 original size:32 final size:32
Alignment explanation
Indices: 2475853--2475913 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
2475843 CAACAAAAGG
2475853 TGACCAAGGAAAAACCTAAGTCGAAAAGAAGA
1 TGACCAAGGAAAAACCTAAGTCGAAAAGAAGA
* ** * *
2475885 TGACCAGGGCGAAACCTAGGTCTAAAAGA
1 TGACCAAGGAAAAACCTAAGTCGAAAAGA
2475914 GGTTGACAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (32 bp):
TGACCAAGGAAAAACCTAAGTCGAAAAGAAGA
Found at i:2475928 original size:117 final size:117
Alignment explanation
Indices: 2475722--2475945 Score: 340
Period size: 117 Copynumber: 1.9 Consensus size: 117
2475712 CGAAACCACT
* * * * *
2475722 ACGTCAACAAAAGGTGATCAGGGAAAAACCTAAGTCGAAAAGAAGTTTACTAGGGCAAAACCAAG
1 ACGTCAACAAAAGGTGACCAAGGAAAAACCTAAGTCGAAAAGAAGATGACCAGGGCAAAACCAAG
** * *
2475787 GTCGAAAAGAGGTTGACGGGGTGAAACCATCATGTTTACAAAAGGTTTTGCC
66 GTCGAAAAGAGGTTGACAAGGTGAAACCATCACGTTAACAAAAGGTTTTGCC
* *
2475839 ACGTCAACAAAAGGTGACCAAGGAAAAACCTAAGTCGAAAAGAAGATGACCAGGGCGAAACCTAG
1 ACGTCAACAAAAGGTGACCAAGGAAAAACCTAAGTCGAAAAGAAGATGACCAGGGCAAAACCAAG
*
2475904 GTCTAAAAGAGGTTGACAAGGTGAAACCATCACGTTAACAAA
66 GTCGAAAAGAGGTTGACAAGGTGAAACCATCACGTTAACAAA
2475946 GTATGACCAG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 95 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (117 bp):
ACGTCAACAAAAGGTGACCAAGGAAAAACCTAAGTCGAAAAGAAGATGACCAGGGCAAAACCAAG
GTCGAAAAGAGGTTGACAAGGTGAAACCATCACGTTAACAAAAGGTTTTGCC
Found at i:2475990 original size:32 final size:31
Alignment explanation
Indices: 2475865--2475990 Score: 91
Period size: 32 Copynumber: 3.9 Consensus size: 31
2475855 ACCAAGGAAA
* *
2475865 AACCTAAGTCGAAAAGAAGATGACCAGGGC-G
1 AACCTAAGTCTAAAAG-AGTTGACCAGGGCAG
* *
2475896 AAACCTAGGTCTAAAAGAGGTTGACAAGGTG-A-
1 -AACCTAAGTCTAAAAGA-GTTGACCAGG-GCAG
*
2475928 AACCATCACGT-TAACAA-AGTATGACCAGGGCAG
1 AACC-T-AAGTCTAA-AAGAGT-TGACCAGGGCAG
2475961 AACCTAAGTCTAAAAGATGTTGACCAGGGC
1 AACCTAAGTCTAAAAGA-GTTGACCAGGGC
2475991 GAAACCATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 24
0.71 0.07 0.23
Matches are distributed among these distances:
31 13 0.17
32 50 0.67
33 12 0.16
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (31 bp):
AACCTAAGTCTAAAAGAGTTGACCAGGGCAG
Found at i:2476149 original size:67 final size:65
Alignment explanation
Indices: 2476029--2476183 Score: 211
Period size: 67 Copynumber: 2.4 Consensus size: 65
2476019 AGGCAAAACC
* * *
2476029 AAGAAGTTGACCAGGGTGATACCATCATGTTAACAAAAAGTGACTACGACAAAACCTAAGTCAAA
1 AAGAAGTTGACCAAGGTGAAACCATCATGTCAACAAAAAGTGACTACGACAAAACCTAAGTC--A
2476094 AA
64 AA
* * * * *
2476096 AAGAAGTTGACCAAGGTGAAATCATCATGTCAACAAAATGTGGCTAGGGCAAAACCTAAGTCAAA
1 AAGAAGTTGACCAAGGTGAAACCATCATGTCAACAAAAAGTGACTACGACAAAACCTAAGTCAAA
*
2476161 AAGAAGTTAACCAAGGTGAAACC
1 AAGAAGTTGACCAAGGTGAAACC
2476184 TAGGTCAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 24 0.31
67 54 0.69
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (65 bp):
AAGAAGTTGACCAAGGTGAAACCATCATGTCAACAAAAAGTGACTACGACAAAACCTAAGTCAAA
Found at i:2476183 original size:32 final size:31
Alignment explanation
Indices: 2476147--2476270 Score: 92
Period size: 32 Copynumber: 3.9 Consensus size: 31
2476137 GGCTAGGGCA
2476147 AAACCTAAGTCAAAAAGAAGTTAACCAAGGTG
1 AAACCTAAGTCAAAAAGAAGTTAACC-AGGTG
* * * *
2476179 AAACCTAGGTCAAAAATAGGTTGACCAGGTG
1 AAACCTAAGTCAAAAAGAAGTTAACCAGGTG
* * *
2476210 AAACCATCACA-TCAACAAAG--GATGACCAGTTG
1 AAACC-T-A-AGTCAA-AAAGAAGTTAACCAGGTG
* * *
2476242 AAACCCAAGTCGAAAAGAAGTTGACCAGG
1 AAACCTAAGTCAAAAAGAAGTTAACCAGG
2476271 GCAAAACCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
29 5 0.07
30 4 0.05
31 18 0.25
32 38 0.52
33 5 0.07
34 3 0.04
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.15
Consensus pattern (31 bp):
AAACCTAAGTCAAAAAGAAGTTAACCAGGTG
Found at i:2476212 original size:31 final size:32
Alignment explanation
Indices: 2476147--2476214 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
2476137 GGCTAGGGCA
2476147 AAACCTAAGTCAAAAAGAAGTTAACCAAGGTG
1 AAACCTAAGTCAAAAAGAAGTTAACCAAGGTG
* * * *
2476179 AAACCTAGGTCAAAAATAGGTTGACC-AGGTG
1 AAACCTAAGTCAAAAAGAAGTTAACCAAGGTG
2476210 AAACC
1 AAACC
2476215 ATCACATCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (32 bp):
AAACCTAAGTCAAAAAGAAGTTAACCAAGGTG
Found at i:2476325 original size:65 final size:65
Alignment explanation
Indices: 2476170--2476865 Score: 422
Period size: 64 Copynumber: 10.7 Consensus size: 65
2476160 AAAGAAGTTA
* * * * * *
2476170 ACCAAGGTGAAACCTAGGTCAAAAATAGGTTGACCA-GGTGAAACCATCAC-ATCAAC-AAAGGA
1 ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGA-CAACAAAAGG-
2476232 TG
64 TG
* * * * *
2476234 ACCA-GTTGAAACCCAAGTCGAAAAGAAGTTGACCAGGGCAAAACCATCATGACAACAAAAGGTG
1 ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGACAACAAAAGGTG
* ** * * * * * *
2476298 ACCAAGGCAAAACCTAAGTCTAAAAGAAATTGACCAAGGTGAAACTATCACGCCAACAAAGGGTG
1 ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGACAACAAAAGGTG
* * * * *** * *
2476363 ACCAAGGTGAAACTTAAGTCTAAAAGAAATTGACTAGGACGAAGCCATCAC-ATGAACAAAAGGT
1 ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGA-CAACAAAAGGT
2476427 G
65 G
* * * * * * * * * *
2476428 ACTAGGGCGAAACCTAAGT-AAAAAAAAGTAGACTAGGGTAAACCCATCACGTCAACTAAAGGCG
1 ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGACAACAAAAGGTG
* * * * *
2476492 ACTAGGG-GAAACCTAAGT-TGAAAAGTAGTTAACCAAGGAAAAACCATCAC-ATCAAC-AAAGG
1 ACCAGGGTGAAACCTAAGTCT-AAAAGAAGTTGACCAGGGTAAAACCATCACGA-CAACAAAAGG
2476553 TG
64 TG
* * ** * *
2476555 ACTAGGGTGAAACCTTAGTAAAAAAGAAGTT-ATCCAAGGTAAAACCATCACGATAACAAAAAGG
1 ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGA-CCAGGGTAAAACCATCACGACAAC-AAAA-G
2476619 GTG
63 GTG
* * * *
2476622 ACCAGGGTGAAACCTAAGTC-AAAAAAAGGTTGACTAGGGTGAGACCATCAC-ATCAACTAAAAG
1 ACCAGGGTGAAACCTAAGTCTAAAAGAA-GTTGACCAGGGTAAAACCATCACGA-CAAC-AAAAG
2476685 GTG
63 GTG
* * *** * **
2476688 ACTAGGGTGAAACCTCAA-TC-CAAA-AAGTTGACCAGGACGAAACCATCATGTTAACAAAAGGG
1 ACCAGGGTGAAACCT-AAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGACAACAAAA-GG
2476750 TG
64 TG
* * * * * * * **
2476752 ACTAGGGGGCGAAACTTAAGT-TCAGAAGAGGTTAACCAAGGCGAAACCATCAC-ATCAACTAAA
1 ACCA--GGGTGAAACCTAAGTCT-AAAAGAAGTTGACCAGGGTAAAACCATCACGA-CAAC-AAA
2476815 AGGTG
61 AGGTG
* * *
2476820 ACTAGGGTGAAACCTTAGT-TGAAAAGAAGTTGACCAAGGTAAAACC
1 ACCAGGGTGAAACCTAAGTCT-AAAAGAAGTTGACCAGGGTAAAACC
2476866 TAAGTCGAAA
Statistics
Matches: 498, Mismatches: 105, Indels: 56
0.76 0.16 0.08
Matches are distributed among these distances:
63 54 0.11
64 158 0.32
65 125 0.25
66 76 0.15
67 49 0.10
68 32 0.06
69 4 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (65 bp):
ACCAGGGTGAAACCTAAGTCTAAAAGAAGTTGACCAGGGTAAAACCATCACGACAACAAAAGGTG
Found at i:2476649 original size:32 final size:34
Alignment explanation
Indices: 2476596--2476758 Score: 112
Period size: 34 Copynumber: 4.9 Consensus size: 34
2476586 ATCCAAGGTA
*
2476596 AAACCATCACGAT-AACAAAAAGGGTGACCAGGGTG
1 AAACC-TCAC-ATCAACAAAAAGGGTGACTAGGGTG
*
2476631 AAACCT-A-AGTCAA-AAAAAGGTTGACTAGGGTG
1 AAACCTCACA-TCAACAAAAAGGGTGACTAGGGTG
* *
2476663 AGACCATCACATCAACTAAAA-GGTGACTAGGGTG
1 AAACC-TCACATCAACAAAAAGGGTGACTAGGGTG
* * **
2476697 AAACCTCA-ATC--CAAAAA-GTTGACCAGGACG
1 AAACCTCACATCAACAAAAAGGGTGACTAGGGTG
** *
2476727 AAACCATCATGTTAAC-AAAAGGGTGACTAGGG
1 AAACC-TCACATCAACAAAAAGGGTGACTAGGG
2476759 GGCGAAACTT
Statistics
Matches: 101, Mismatches: 16, Indels: 23
0.72 0.11 0.16
Matches are distributed among these distances:
30 19 0.19
31 4 0.04
32 26 0.26
33 11 0.11
34 31 0.31
35 10 0.10
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (34 bp):
AAACCTCACATCAACAAAAAGGGTGACTAGGGTG
Found at i:2476809 original size:132 final size:127
Alignment explanation
Indices: 2476175--2476834 Score: 432
Period size: 130 Copynumber: 5.1 Consensus size: 127
2476165 AGTTAACCAA
* * * * * * * *
2476175 GGTGAAACCTAGGTCAAAAATAGGTTGACCAGGTGAAACCATCACATCAAC-AAAGGATGACCAG
1 GGTGAAACCTA-AT-AAAAAAAAGTTGACCAGGAGAAACCATCACGTTAACAAAAGGGTGACTAG
** * * * * * * *
2476239 TTGAAACCCAAG-TCGAAAAGAAGTTGACCAGGGCAAAACCATCATGA-CAACAAAAGGTGACCA
64 GGGAAACCTAAGTTC-AAAAGAGGTTAACCAAGGCGAAACCATCA-CATCAACAAAAGGTGACTA
*
2476302 A
127 G
** * * * **
2476303 GGCAAAACCTAAGTCTAAAAGAAA-TTGACCAAGGTGAAACTATCACGCCAAC-AAAGGGTGACC
1 GGTGAAACCTAA---TAAAAAAAAGTTGACC-AGGAGAAACCATCACGTTAACAAAAGGGTGA-C
* * * ** * * * *
2476366 AAGGTGAAACTTAAG-TCTAAAAGAAATTGA-CTAGGACGAAGCCATCACATGAACAAAAGGTGA
61 TAGGGGAAACCTAAGTTC-AAAAGAGGTTAACCAAGG-CGAAACCATCACATCAACAAAAGGTGA
2476429 CTAG
124 CTAG
* * * * * *
2476433 GGCGAAACCTAAGTAAAAAAAAGTAGACTAGG-GTAAACCCATCACGTCAACTAAA-GGCGACTA
1 GGTGAAACCTAA-TAAAAAAAAGTTGACCAGGAG-AAA-CCATCACGTTAACAAAAGGGTGACTA
* **
2476496 GGGGAAACCTAAGTTGAAAAGTA-GTTAACCAAGGAAAAACCATCACATCAAC-AAAGGTGACTA
63 GGGGAAACCTAAGTTCAAAAG-AGGTTAACCAAGGCGAAACCATCACATCAACAAAAGGTGACTA
2476559 G
127 G
* *
2476560 GGTGAAACCTTAGTAAAAAAGAAGTT-ATCCAAGGTA-AAACCATCACGATAACAAAAAGGGTGA
1 GGTGAAACC-TAATAAAAAA-AAGTTGA-CC-AGG-AGAAACCATCACGTTAAC-AAAAGGGTGA
* * * * * * *
2476623 CCAGGGTGAAACCTAAG-TCAAAAAAAGGTTGACTAGGGTGAGACCATCACATCAACTAAAAGGT
60 CTAGGG-GAAACCTAAGTTC-AAAAGAGGTTAACCAAGGCGAAACCATCACATCAAC-AAAAGGT
2476687 GACTAG
122 GACTAG
** *
2476693 GGTGAAACCTCAAT-CCAAAAAGTTGACCAGGACGAAACCATCATGTTAACAAAAGGGTGACTAG
1 GGTGAAACCT-AATAAAAAAAAGTTGACCAGGA-GAAACCATCACGTTAACAAAAGGGTGACTA-
* *
2476757 GGGGCGAAACTTAAGTTCAGAAGAGGTTAACCAAGGCGAAACCATCACATCAACTAAAAGGTGAC
63 -GGG-GAAACCTAAGTTCAAAAGAGGTTAACCAAGGCGAAACCATCACATCAAC-AAAAGGTGAC
2476822 TAG
125 TAG
2476825 GGTGAAACCT
1 GGTGAAACCT
2476835 TAGTTGAAAA
Statistics
Matches: 423, Mismatches: 75, Indels: 64
0.75 0.13 0.11
Matches are distributed among these distances:
127 29 0.07
128 82 0.19
129 70 0.17
130 89 0.21
131 58 0.14
132 70 0.17
133 25 0.06
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (127 bp):
GGTGAAACCTAATAAAAAAAAGTTGACCAGGAGAAACCATCACGTTAACAAAAGGGTGACTAGGG
GAAACCTAAGTTCAAAAGAGGTTAACCAAGGCGAAACCATCACATCAACAAAAGGTGACTAG
Found at i:2478256 original size:10 final size:11
Alignment explanation
Indices: 2478234--2478268 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2478224 AAGAAAATGG
*
2478234 ATTAGAGAAAA
1 ATTAAAGAAAA
2478245 ATTAAA-AAAA
1 ATTAAAGAAAA
2478255 ATTAAAGAAAA
1 ATTAAAGAAAA
2478266 ATT
1 ATT
2478269 CCTTTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (11 bp):
ATTAAAGAAAA
Found at i:2480113 original size:97 final size:97
Alignment explanation
Indices: 2479856--2480102 Score: 307
Period size: 97 Copynumber: 2.5 Consensus size: 97
2479846 TTTTTGGGTG
* * * * *
2479856 AAAAACGGGATTAGAGTATCCCCTAAGAGTG-ATGGGATTGGAGTATCCCCTATGATGATAATTT
1 AAAAACGGGGTTAGAGTATCCCCTAAGAG-GAATGGGGTTAGAGTATCCCCCATGATGAAAATTT
* * ***
2479920 AGGCAAAAATAAGATTTAAATCTTGTTTAGTTT
65 AAGCAAAAATAAGATTTAAATATTGACAAGTTT
* * * * * *
2479953 AAAAATGGGGTTAGAGTATCCCCTTAGAAGAATAGGGTTAGAGTATCCCCGATGATGACAATTTA
1 AAAAACGGGGTTAGAGTATCCCCTAAGAGGAATGGGGTTAGAGTATCCCCCATGATGAAAATTTA
2480018 AGCAAAAATAAGATTTAAATATTGACAAGTTT
66 AGCAAAAATAAGATTTAAATATTGACAAGTTT
* * *
2480050 AAAAACGGGGTTGGAGTATCCCGTCAGAGGAATGGGGTTAGAGTATCCCCCAT
1 AAAAACGGGGTTAGAGTATCCCCTAAGAGGAATGGGGTTAGAGTATCCCCCAT
2480103 AAATAAAATT
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 1 0.01
97 127 0.99
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (97 bp):
AAAAACGGGGTTAGAGTATCCCCTAAGAGGAATGGGGTTAGAGTATCCCCCATGATGAAAATTTA
AGCAAAAATAAGATTTAAATATTGACAAGTTT
Found at i:2482550 original size:21 final size:20
Alignment explanation
Indices: 2482498--2482551 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
2482488 CATTTCAGAC
2482498 ATGTATTGATACATTCACTT
1 ATGTATTGATACATTCACTT
** *
2482518 ATGTATCAATACATT-ACCCT
1 ATGTATTGATACATTCA-CTT
2482538 ATTGTATTGATACA
1 A-TGTATTGATACA
2482552 ATTTGTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 10 0.37
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATTGATACATTCACTT
Found at i:2483483 original size:156 final size:153
Alignment explanation
Indices: 2483321--2483831 Score: 564
Period size: 156 Copynumber: 3.3 Consensus size: 153
2483311 AACCCTAGAG
* * * *
2483321 GACTTAAAAATGATTGTAAATGGGATGAACTTATCCTAAATGCACACATTCGGTACAAAAGCATC
1 GACTTAAAAATGATTATAAATGGGATGAACCTATCCTAAATGCACACATTCGGCATAAAAGCATC
* * * * *
2483386 CTGGTGACAACCTAGGACTCAGTTCTAGGAAAATTATGAAAATACCTTTAAGGTATACTTTCGAC
66 CTAGTGACAACCTAAGACTCGGTT-TAGGAAAATTAAGAAAAT-CCTCTAAGGTATACTTTCGAC
2483451 ATGAAAATATATCGGTAACCTTAAAA
129 ATGAAAATAT-TCGGTAACCTTAAAA
* * * * * * *
2483477 AACTTAAAAATGATCATAAATGAGATGATCCTATCCTAAATGCACACCTTGGGCATAAAAGTATC
1 GACTTAAAAATGATTATAAATGGGATGAACCTATCCTAAATGCACACATTCGGCATAAAAGCATC
* * * * *
2483542 CTAGTGATAACCTAAGATTTGGTTTTAGGAAAATTACA-AAAATGCCTCTAGGGTATACCTTCGA
66 CTAGTGACAACCTAAGACTCGG-TTTAGGAAAATTA-AGAAAAT-CCTCTAAGGTATACTTTCGA
* * * *
2483606 CATGAAAATATCTCAGTAACCGTAGAG
128 CATGAAAATAT-TCGGTAACCTTAAAA
* * * *
2483633 GACTTAAAAATGATTATAAATAGGATGAACCTATCTTAAATGCACACATTTGGCATAAAAGGATC
1 GACTTAAAAATGATTATAAATGGGATGAACCTATCCTAAATGCACACATTCGGCATAAAAGCATC
2483698 CTAGTGACAACCTAAGACTCGGGCTTTAGGAAAATTACAGAAAAT-CTCT-AGGCTATACCTTT-
66 CTAGTGACAACCTAAGACTC-GG-TTTAGGAAAATTA-AGAAAATCCTCTAAGG-TATA-CTTTC
* *
2483760 GACATGAAAACATTCAGGTAGCCTTAAAA
126 GACATGAAAATATTC-GGTAACCTTAAAA
*
2483789 GACTTAAAAATGATTGTAAATGGGATG-ACGCTTATCCTAAATG
1 GACTTAAAAATGATTATAAATGGGATGAAC-C-TATCCTAAATG
2483832 GGTAATTTAG
Statistics
Matches: 295, Mismatches: 51, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
155 6 0.02
156 252 0.85
157 32 0.11
158 5 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (153 bp):
GACTTAAAAATGATTATAAATGGGATGAACCTATCCTAAATGCACACATTCGGCATAAAAGCATC
CTAGTGACAACCTAAGACTCGGTTTAGGAAAATTAAGAAAATCCTCTAAGGTATACTTTCGACAT
GAAAATATTCGGTAACCTTAAAA
Found at i:2493588 original size:46 final size:46
Alignment explanation
Indices: 2493538--2493625 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
2493528 AACAAAAAGG
2493538 GAGAGA-AATATTTTGAAAATAAATTTGTTTTGTAAATTTTGGAAAA
1 GAGAGATAATATTTTG-AAATAAATTTGTTTTGTAAATTTTGGAAAA
** *
2493584 GAGAGATTTTTTTTTGAAATAAATTTGTTTTGTAAATTTTGG
1 GAGAGATAATATTTTGAAATAAATTTGTTTTGTAAATTTTGG
2493626 GAGAGATAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 32 0.84
47 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (46 bp):
GAGAGATAATATTTTGAAATAAATTTGTTTTGTAAATTTTGGAAAA
Found at i:2495597 original size:153 final size:150
Alignment explanation
Indices: 2495389--2495817 Score: 460
Period size: 151 Copynumber: 2.8 Consensus size: 150
2495379 AAATTATTAT
* *
2495389 ATAAAAAATTTC-AAAACTCATAAAA-CAATTGAATTTTTACAAATTGATTTAATATGAATTTAA
1 ATAAAAAATTTCTAAAACTCATAAAATAAATTGAA-TTTT-CAAACTGATTTAATATGAATTTAA
** *
2495452 TAAAAATATTTGTTGAATTTTAAAAATTATAGA-TTGAGAAAAATC-CAGTCAGAGAAATTTACA
64 -AAAAATATTTGAAGAATTTTAAAAATTATAAACTT-AGAAAAATCTCA-TCAGAGAAATTTACA
* *
2495515 AAGTAGAAAACTCTGTAT-CTTGGT-
126 AAGTAAAAAACTCTGCATCCTT-GTA
*
2495539 ATCAAAAAATTTCTAAAACTCATAAAATAAATTGAATTTTGCATAACTGATTTAATATG-AGTTA
1 AT-AAAAAATTTCTAAAACTCATAAAATAAATTGAATTTT-CA-AACTGATTTAATATGAATTTA
* * * *
2495603 AAAAAATATTTGAAGAATTTTGAAAATTGTAAACTTAGAAAAATCTTATCAGAGAAATTTACGAA
63 AAAAAATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCTCATCAGAGAAATTTACAAA
2495668 GTAAAAAACTCTGCATCCTTGTA
128 GTAAAAAACTCTGCATCCTTGTA
* * * * * *
2495691 ATAAGAAAAATTCTAAAACTCATAAATTAAATTAAAAATTTCAAAACTAATTTAATATGAATTAA
1 ATAA-AAAATTTCTAAAACTCATAAAATAAATT-GAATTTTC-AAACTGATTTAATATGAATTTA
* * * * * *
2495756 AAAATAATAATTAAACAATTTTGAAAATTATAAACTTAGAAAAGTC-CTACCAGAGAAATTTA
63 AAAA-AATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCTC-ATCAGAGAAATTTA
2495818 TGTAGTAGAA
Statistics
Matches: 238, Mismatches: 27, Indels: 24
0.82 0.09 0.08
Matches are distributed among these distances:
150 2 0.01
151 80 0.34
152 73 0.31
153 34 0.14
154 49 0.21
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (150 bp):
ATAAAAAATTTCTAAAACTCATAAAATAAATTGAATTTTCAAACTGATTTAATATGAATTTAAAA
AAATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCTCATCAGAGAAATTTACAAAGTA
AAAAACTCTGCATCCTTGTA
Found at i:2495854 original size:154 final size:151
Alignment explanation
Indices: 2495435--2495857 Score: 449
Period size: 154 Copynumber: 2.8 Consensus size: 151
2495425 TTACAAATTG
* **** * *
2495435 ATTTAATATGAATTTAATAAAAATATTTGTTGAATTTTAAAAATTATAGA-TTGAGAAAAATCC-
1 ATTTAATATGAA-TTAA-AAAAATAATTAAACAATTTTGAAAATTATAAACTT-AGAAAAATCCT
* * * *
2495498 AGTCAGAGAAATTTACAAAGTAGAAAACTCTGTATCTTGGTATCAAAAAATTTCTAAAACTCATA
63 A-TCAGAGAAATTTACGAAGTAGAAAACTCTGTATCTTGGAATTAAAAAAATTCTAAAACTCATA
* * * *
2495563 AAATAAATTGAATTTTGCATAACTG
127 AAATAAATTAAAATTTGCAAAACTA
* * * * * *
2495588 ATTTAATATGAGTTAAAAAAATATTTGAAGAATTTTGAAAATTGTAAACTTAGAAAAATCTTATC
1 ATTTAATATGAATTAAAAAAATAATTAAACAATTTTGAAAATTATAAACTTAGAAAAATCCTATC
* * *
2495653 AGAGAAATTTACGAAGTAAAAAACTCTGCATCCTTGTAA-TAAGAAAAATTCTAAAACTCATAAA
66 AGAGAAATTTACGAAGTAGAAAACTCTGTAT-CTTGGAATTAA-AAAAATTCTAAAACTCATAAA
*
2495717 TTAAATTAAAAATTT-CAAAACTA
129 ATAAATT-AAAATTTGCAAAACTA
*
2495740 ATTTAATATGAATTAAAAAATAATAATTAAACAATTTTGAAAATTATAAACTTAGAAAAGTCCTA
1 ATTTAATATGAATT-AAAAA-AATAATTAAACAATTTTGAAAATTATAAACTTAGAAAAATCCTA
* * * * *
2495805 CCAGAGAAATTTATGTAGTAGAAAACTCCGTATTTTGGAAATTAAAAAAATTC
64 TCAGAGAAATTTACGAAGTAGAAAACTCTGTATCTTGG-AATTAAAAAAATTC
2495858 GCAAGAAAAT
Statistics
Matches: 227, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
151 68 0.30
152 57 0.25
153 24 0.11
154 75 0.33
155 3 0.01
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (151 bp):
ATTTAATATGAATTAAAAAAATAATTAAACAATTTTGAAAATTATAAACTTAGAAAAATCCTATC
AGAGAAATTTACGAAGTAGAAAACTCTGTATCTTGGAATTAAAAAAATTCTAAAACTCATAAAAT
AAATTAAAATTTGCAAAACTA
Found at i:2496248 original size:20 final size:19
Alignment explanation
Indices: 2496203--2496257 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2496193 TGTATCGATA
* * *
2496203 CATTGTGTCGATATATGCT
1 CATTGTATCGATACATACT
2496222 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
2496241 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
2496258 GAAACTGGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:2496331 original size:20 final size:20
Alignment explanation
Indices: 2496288--2496339 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2496278 TAAGTGAAAT
* **
2496288 GTATCGATACATGGGACATT
1 GTATCGATACATGGGAAAAA
*
2496308 GTATCGATACATGGTAAAAA
1 GTATCGATACATGGGAAAAA
2496328 GTATCGATACAT
1 GTATCGATACAT
2496340 TGTGTCCAAC
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:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGGGAAAAA
Found at i:2507777 original size:76 final size:75
Alignment explanation
Indices: 2507559--2508618 Score: 602
Period size: 76 Copynumber: 14.3 Consensus size: 75
2507549 ATGGAAATTT
* * *
2507559 TAGAACCACATATTTCCCATCATGATCATCTTCTTTAGCTTCTTGTCAGTTTGTTTCAGTTGTTG
1 TAGAACCACATATTTCCCATCATGATC-TCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTG
* * * *
2507624 GTAGGAAATTT
65 ATGGGAGATTG
* * * ** * * *
2507635 TAG-A--ACATATTCCCCATC--GAT-TATTTTCTAGCTCATTGTCAATTTGTTTTAGCTATTGA
1 TAGAACCACATATTTCCCATCATGATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTGA
*
2507694 TGAGAGATTG
66 TGGGAGATTG
* * * * **
2507704 TAGAACCATATATTTGCCATCATGATCATCTTTTTTAGCTTCTTATCAGTTTGAGTCAGCTGTTG
1 TAGAACCACATATTTCCCATCATGATC-TCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTG
2507769 ATGGGAGATTG
65 ATGGGAGATTG
* * * * * *
2507780 TAGAACCACATATTTCCCATCAAGATCATCTTTTTAAGCTTGTTGTTAGTTTGTTTCGGTTGTTG
1 TAGAACCACATATTTCCCATCATGATC-TCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTG
* * *
2507845 ATGGAAAATCG
65 ATGGGAGATTG
* * * * ** * ** *
2507856 TAAAAATCACATA-TT-CC-TCATTG-GCTATTTTCCAGCTTGTTGTCAGTTTGTTTTGGTTGTT
1 T-AGAACCACATATTTCCCATCA-TGATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTT
* * * *
2507917 GGTAGGAAATTT
64 GATGGGAGATTG
* * ** * * * *
2507929 TAG-A--ACATATTTCCCATC--GAT-TATTTTCTAGCTCATTGTTAATTTGTTTTAGCTATTGA
1 TAGAACCACATATTTCCCATCATGATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTGA
* *
2507988 TGAGAGATTT
66 TGGGAGATTG
* *
2507998 TAGAACCACATATTTGCCATCATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTG
1 TAGAACCACATATTTCCCATCATGATC-TCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTG
*
2508063 ATGGGAGACTG
65 ATGGGAGATTG
* * * * *
2508074 TAGAACCACATATTTCCCATCAAGATAATCTTTTTAAGCTTTTTGTCAGTTTGTTTCGGTTGTTG
1 TAGAACCACATATTTCCCATCATGAT-CTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTG
* * * *
2508139 ATAGAAAATCG
65 ATGGGAGATTG
* * * * ** * ** *
2508150 TAAAAATCACATA-TT-CC-TCATTG-GCTATTTTCCAGCTTGTTGTCAGTTTGTTTTGGTTGTT
1 T-AGAACCACATATTTCCCATCA-TGATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTT
* * * *
2508211 GGTAGGAAATTT
64 GATGGGAGATTG
* * ** * * *
2508223 TAG-A--ACATATTTCCCATC--GAT-TATTTTCTAGCTCGTTGTCAATTTGTTTTAGCTATTGA
1 TAGAACCACATATTTCCCATCATGATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTGA
* *
2508282 TGAGAGATTT
66 TGGGAGATTG
* * *
2508292 TAGAACCATATATTTGCCATCATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTG
1 TAGAACCACATATTTCCCATCATGATC-TCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTG
* *
2508357 ATAGGAGACTG
65 ATGGGAGATTG
* * *
2508368 TAGAACCACATATTTCCCATCAAGATCATCTTTTTAAGCTTTTTGTCAGTTTGTTT-AGGTTGTT
1 TAGAACCACATATTTCCCATCATGATC-TCTTTTTTAGCTTTTTGTCAGTTTGTTTCA-GCTGTT
* * *
2508432 GATGGAAAATCG
64 GATGGGAGATTG
* * * * * * * *
2508444 TAAAAATCACATA-TT-CC-TCATCGA-CTATTTTCTAGCTTGTTGTTAGTTTGTTTCGGTTGTT
1 T-AGAACCACATATTTCCCATCAT-GATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTT
* * *
2508505 GATTGAAAATTG
64 GATGGGAGATTG
* * ** * * * **
2508517 TAGAACCACATATTTTCCATCCTGATCAT-TTTCTTCGGCTTATTATTAGTTTGTTTTGGCTGTT
1 TAGAACCACATATTTCCCATCATGATC-TCTTT-TTTAGCTTTTTGTCAGTTTGTTTCAGCTGTT
* *
2508581 GAT-GGATATTT
64 GATGGGAGATTG
* * *
2508592 TAGAAATCATATATTTCCTATCATGAT
1 TAG-AACCACATATTTCCCATCATGAT
2508619 TATCTATTCC
Statistics
Matches: 762, Mismatches: 177, Indels: 90
0.74 0.17 0.09
Matches are distributed among these distances:
69 129 0.17
70 7 0.01
71 9 0.01
72 51 0.07
73 134 0.18
74 24 0.03
75 27 0.04
76 354 0.46
77 27 0.04
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (75 bp):
TAGAACCACATATTTCCCATCATGATCTCTTTTTTAGCTTTTTGTCAGTTTGTTTCAGCTGTTGA
TGGGAGATTG
Found at i:2508021 original size:294 final size:294
Alignment explanation
Indices: 2507595--2508505 Score: 1606
Period size: 294 Copynumber: 3.1 Consensus size: 294
2507585 CATCTTCTTT
* * *
2507595 AGCTTCTTGTCAGTTTGTTTCAGTTGTTGGTAGGAAATTTTAGAACATATTCCCCATCGATTATT
1 AGCTTGTTGTCAGTTTGTTTCGGTTGTTGGTAGGAAATTTTAGAACATATTTCCCATCGATTATT
*
2507660 TTCTAGCTCATTGTCAATTTGTTTTAGCTATTGATGAGAGATTGTAGAACCATATATTTGCCATC
66 TTCTAGCTCATTGTCAATTTGTTTTAGCTATTGATGAGAGATTTTAGAACCATATATTTGCCATC
* * * * *
2507725 ATGATCATCTTTTTTAGCTTCTTATCAGTTTGAGTCAGCTGTTGATGGGAGATTGTAGAACCACA
131 ATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTGATGGGAGACTGTAGAACCACA
* *
2507790 TATTTCCCATCAAGATCATCTTTTTAAGCTTGTTGTTAGTTTGTTTCGGTTGTTGATGGAAAATC
196 TATTTCCCATCAAGATCATCTTTTTAAGCTTTTTGTCAGTTTGTTTCGGTTGTTGATGGAAAATC
2507855 GTAAAAATCACATATTCCTCATTGGCTATTTTCC
261 GTAAAAATCACATATTCCTCATTGGCTATTTTCC
*
2507889 AGCTTGTTGTCAGTTTGTTTTGGTTGTTGGTAGGAAATTTTAGAACATATTTCCCATCGATTATT
1 AGCTTGTTGTCAGTTTGTTTCGGTTGTTGGTAGGAAATTTTAGAACATATTTCCCATCGATTATT
* *
2507954 TTCTAGCTCATTGTTAATTTGTTTTAGCTATTGATGAGAGATTTTAGAACCACATATTTGCCATC
66 TTCTAGCTCATTGTCAATTTGTTTTAGCTATTGATGAGAGATTTTAGAACCATATATTTGCCATC
2508019 ATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTGATGGGAGACTGTAGAACCACA
131 ATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTGATGGGAGACTGTAGAACCACA
* *
2508084 TATTTCCCATCAAGATAATCTTTTTAAGCTTTTTGTCAGTTTGTTTCGGTTGTTGATAGAAAATC
196 TATTTCCCATCAAGATCATCTTTTTAAGCTTTTTGTCAGTTTGTTTCGGTTGTTGATGGAAAATC
2508149 GTAAAAATCACATATTCCTCATTGGCTATTTTCC
261 GTAAAAATCACATATTCCTCATTGGCTATTTTCC
*
2508183 AGCTTGTTGTCAGTTTGTTTTGGTTGTTGGTAGGAAATTTTAGAACATATTTCCCATCGATTATT
1 AGCTTGTTGTCAGTTTGTTTCGGTTGTTGGTAGGAAATTTTAGAACATATTTCCCATCGATTATT
*
2508248 TTCTAGCTCGTTGTCAATTTGTTTTAGCTATTGATGAGAGATTTTAGAACCATATATTTGCCATC
66 TTCTAGCTCATTGTCAATTTGTTTTAGCTATTGATGAGAGATTTTAGAACCATATATTTGCCATC
*
2508313 ATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTGATAGGAGACTGTAGAACCACA
131 ATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTGATGGGAGACTGTAGAACCACA
*
2508378 TATTTCCCATCAAGATCATCTTTTTAAGCTTTTTGTCAGTTTGTTTAGGTTGTTGATGGAAAATC
196 TATTTCCCATCAAGATCATCTTTTTAAGCTTTTTGTCAGTTTGTTTCGGTTGTTGATGGAAAATC
* * *
2508443 GTAAAAATCACATATTCCTCATCGACTATTTTCT
261 GTAAAAATCACATATTCCTCATTGGCTATTTTCC
*
2508477 AGCTTGTTGTTAGTTTGTTTCGGTTGTTG
1 AGCTTGTTGTCAGTTTGTTTCGGTTGTTG
2508506 ATTGAAAATT
Statistics
Matches: 589, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
294 589 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (294 bp):
AGCTTGTTGTCAGTTTGTTTCGGTTGTTGGTAGGAAATTTTAGAACATATTTCCCATCGATTATT
TTCTAGCTCATTGTCAATTTGTTTTAGCTATTGATGAGAGATTTTAGAACCATATATTTGCCATC
ATGATCGTCTTTTTTAGCTTTTTGTCAGTTTGTGTCAGCTGTTGATGGGAGACTGTAGAACCACA
TATTTCCCATCAAGATCATCTTTTTAAGCTTTTTGTCAGTTTGTTTCGGTTGTTGATGGAAAATC
GTAAAAATCACATATTCCTCATTGGCTATTTTCC
Found at i:2510084 original size:79 final size:79
Alignment explanation
Indices: 2509974--2510458 Score: 341
Period size: 79 Copynumber: 6.2 Consensus size: 79
2509964 GTGAAAATAA
* * *** *
2509974 AGGTTGGAGTATC-CCTTCAGAGATGGTGGGGTTGGAGTATCCTTGAGATGAAAATTTTAATATT
1 AGGTTGGAGTATCTCCTTCAAAAATAAAGGGGTTGGAGTATCC-CGAGATGAAAATTTTAATATT
*
2510038 TTGGAAGTAAAAACA
65 TTGGAAGTAAAAACG
* * *
2510053 AGGTTGGAGTATCTCCTT-AAAAATAAAGGGGTTGGAGTATCCTGATGGTGAAAATTTTAATGCT
1 AGGTTGGAGTATCTCCTTCAAAAATAAAGGGGTTGGAGTATCCCGA-GATGAAAATTTTAAT-AT
* *
2510117 TTTGAAAATAAAAACG
64 TTTGGAAGTAAAAACG
* * * * * *
2510133 GGGTTAGAGTA--TCCTTCGAAAATGATAA--GGTTAGAGTAAACACGAGATGAAAATTTTAATA
1 AGGTTGGAGTATCTCCTTCAAAAAT-A-AAGGGGTTGGAGT-ATCCCGAGATGAAAATTTTAATA
2510194 TTTTGGAAGTAAAAACG
63 TTTTGGAAGTAAAAACG
* * * * * * * * *
2510211 GGGTTGGAGAATC-CCTTCAGAAATTATGGGGTTGGAGGATCCTCGATGGTGAAAA-ATTGATAT
1 AGGTTGGAGTATCTCCTTCAAAAATAAAGGGGTTGGAGTATCC-CGA-GATGAAAATTTTAATAT
* **
2510274 TTTGGAAATAAAAATA
64 TTTGGAAGTAAAAACG
* * * * * *
2510290 AGGTTGGAGTATC-CCCTCAGAAATGATGGGGTTAGAGTATTCCGGAGATGAAAATTTTAATATT
1 AGGTTGGAGTATCTCCTTCAAAAATAAAGGGGTTGGAGTA-TCCCGAGATGAAAATTTTAATATT
*
2510354 TTGGAAGTAAAAATG
65 TTGGAAGTAAAAACG
* * * * * * * * *
2510369 AGGTTGGAGTATC-CCCTCGAAAAT-GATGGGTTGGAGTAACCCTAATGGTGAAAA-ATCAATAT
1 AGGTTGGAGTATCTCCTTCAAAAATAAAGGGGTTGGAGTATCCC-GA-GATGAAAATTTTAATAT
*
2510431 TTTGGAAATAAAATA-G
64 TTTGGAAGTAAAA-ACG
2510447 -GGTTGGAGTATC
1 AGGTTGGAGTATC
2510459 CCTAATGGTG
Statistics
Matches: 326, Mismatches: 62, Indels: 38
0.77 0.15 0.09
Matches are distributed among these distances:
77 15 0.05
78 71 0.22
79 196 0.60
80 42 0.13
81 2 0.01
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (79 bp):
AGGTTGGAGTATCTCCTTCAAAAATAAAGGGGTTGGAGTATCCCGAGATGAAAATTTTAATATTT
TGGAAGTAAAAACG
Found at i:2510242 original size:158 final size:157
Alignment explanation
Indices: 2510018--2510460 Score: 495
Period size: 158 Copynumber: 2.8 Consensus size: 157
2510008 GAGTATCCTT
* * *
2510018 GAGATGAAAATTTTAATATTTTGGAAGTAAAAACAAGGTTGGAGTATCTCCTT-AAAAATAAAGG
1 GAGATGAAAATTTTAATATTTTGGAAGTAAAAACGAGGTTGGAGTATC-CCTTCAGAAATAATGG
* * **
2510082 GGTTGGAGTATCCTGATGGTGAAAATTTTAATGCTTTTGAAAATAAAAACGGGGTTAGAGTAT-C
65 GGTTGGAGTATCCTGATGGTGAAAA-ATTAAT-ATTTTGAAAATAAAAACAAGGTTAGAGTATCC
*
2510146 CTTC-GAAAATGATAAGGTTAGAGTAAACAC-
128 CCTCAG-AAATGATAAGGTTAGAGTAAAC-CG
* * *
2510176 GAGATGAAAATTTTAATATTTTGGAAGTAAAAACGGGGTTGGAGAATCCCTTCAGAAATTATGGG
1 GAGATGAAAATTTTAATATTTTGGAAGTAAAAACGAGGTTGGAGTATCCCTTCAGAAATAATGGG
* * * * *
2510241 GTTGGAGGATCCTCGATGGTGAAAAATTGATATTTTGGAAATAAAAATAAGGTTGGAGTATCCCC
66 GTTGGAGTATCCT-GATGGTGAAAAATTAATATTTTGAAAATAAAAACAAGGTTAGAGTATCCCC
** **
2510306 TCAGAAATGATGGGGTTAGAGTATTCCG
130 TCAGAAATGATAAGGTTAGAGTAAACCG
* * *
2510334 GAGATGAAAATTTTAATATTTTGGAAGTAAAAATGAGGTTGGAGTATCCCCTC-GAAAATGAT-G
1 GAGATGAAAATTTTAATATTTTGGAAGTAAAAACGAGGTTGGAGTATCCCTTCAG-AAATAATGG
* * * * * * *
2510397 GGTTGGAGTAACCCTAATGGTGAAAAATCAATATTTTGGAAAT-AAAATAGGGTTGGAGTATCCC
65 GGTTGGAGT-ATCCTGATGGTGAAAAATTAATATTTTGAAAATAAAAACAAGGTTAGAGTATCCC
2510461 TAATGGTGGA
Statistics
Matches: 247, Mismatches: 31, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
156 20 0.08
157 64 0.26
158 151 0.61
159 12 0.05
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (157 bp):
GAGATGAAAATTTTAATATTTTGGAAGTAAAAACGAGGTTGGAGTATCCCTTCAGAAATAATGGG
GTTGGAGTATCCTGATGGTGAAAAATTAATATTTTGAAAATAAAAACAAGGTTAGAGTATCCCCT
CAGAAATGATAAGGTTAGAGTAAACCG
Found at i:2510465 original size:50 final size:51
Alignment explanation
Indices: 2510396--2510512 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
2510386 CGAAAATGAT
* *
2510396 GGGTTGGAGTAACCCTAATGGT-GAAAAATCAATATTTTGGAAATAAAATA
1 GGGTTGGAGTATCCCTAATGGTGGAAAAATCAATATTTTGGAAATAAAACA
* *
2510446 GGGTTGGAGTATCCCTAATGGTGGAAAAATCGATATTTTGGAAATAAAACG
1 GGGTTGGAGTATCCCTAATGGTGGAAAAATCAATATTTTGGAAATAAAACA
*
2510497 GGGTTTGAGTATCCCT
1 GGGTTGGAGTATCCCT
2510513 TCGAAAATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
50 21 0.34
51 40 0.66
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (51 bp):
GGGTTGGAGTATCCCTAATGGTGGAAAAATCAATATTTTGGAAATAAAACA
Found at i:2510561 original size:28 final size:28
Alignment explanation
Indices: 2510496--2510564 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
2510486 GAAATAAAAC
*
2510496 GGGGTTTGAGTATCCCTTCGAAAATAGT
1 GGGGTTGGAGTATCCCTTCGAAAATAGT
* * *
2510524 AGGGTCGGAGTATCCCTTCGGAAAT-GAT
1 GGGGTTGGAGTATCCCTTCGAAAATAG-T
2510552 GGGGTTGGAGTAT
1 GGGGTTGGAGTAT
2510565 TCCTAAGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCTTCGAAAATAGT
Found at i:2510712 original size:77 final size:77
Alignment explanation
Indices: 2510530--2510721 Score: 219
Period size: 77 Copynumber: 2.5 Consensus size: 77
2510520 TAGTAGGGTC
* * * *
2510530 GGAGTATCCCTTCGGAAAT-GATGGGGTTGGAGTATTCCTAAGATGAAACATTTAATATTTTAGA
1 GGAGTATCCCCTCGAAAATAG-TGGGGTTGGAGTA-T-CTAAGATGAAACAATCAATATTTTAGA
*
2510594 AGTAAAAACGAGGTT
63 AATAAAAACGAGGTT
* * * *
2510609 GGAGTATCCCCTTAGAAATTA-TGGGGTTGGAGTATCTAAGGGTGAAA-AATCAATATTTTGGAA
1 GGAGTATCCCC-TCGAAAATAGTGGGGTTGGAGTATCTAA-GATGAAACAATCAATATTTTAGAA
2510672 ATAAAAACGAGGTT
64 ATAAAAACGAGGTT
* *
2510686 GGAGTATCCCCTCGAAAATAGCGGGGTTAGAGTATC
1 GGAGTATCCCCTCGAAAATAGTGGGGTTGGAGTATC
2510722 CCCAATGGTG
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
76 7 0.07
77 54 0.56
78 7 0.07
79 23 0.24
80 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (77 bp):
GGAGTATCCCCTCGAAAATAGTGGGGTTGGAGTATCTAAGATGAAACAATCAATATTTTAGAAAT
AAAAACGAGGTT
Found at i:2513105 original size:13 final size:13
Alignment explanation
Indices: 2513087--2513111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2513077 AAAAACCTAG
2513087 AATGTATCGATAC
1 AATGTATCGATAC
2513100 AATGTATCGATA
1 AATGTATCGATA
2513112 TATTTTCTTT
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2513654 original size:9 final size:9
Alignment explanation
Indices: 2513630--2513663 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
2513620 TTCTCTTCAT
2513630 AAAAAAAGA
1 AAAAAAAGA
2513639 AAGAAAAAGA
1 AA-AAAAAGA
2513649 AAAAAAAGA
1 AAAAAAAGA
2513658 AAAAAA
1 AAAAAA
2513664 GAAGATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:2513656 original size:15 final size:16
Alignment explanation
Indices: 2513632--2513661 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2513622 CTCTTCATAA
2513632 AAAAAGAAAGAAAAAG
1 AAAAAGAAAGAAAAAG
2513648 AAAAA-AAAGAAAAA
1 AAAAAGAAAGAAAAA
2513662 AAGAAGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:2514008 original size:41 final size:43
Alignment explanation
Indices: 2513945--2514198 Score: 217
Period size: 43 Copynumber: 6.0 Consensus size: 43
2513935 AGACCCTTCC
* * * *
2513945 AACTTTTTGGTTCATATGGTTTCGTCTTGGCCAAC-TCTTT-T
1 AACTTGTTGGTACATATGGTTTCATCTTGGCCAACACCTTTCT
* * *
2513986 -CCTTCGTTGGTACATATGGTTTCATCTCGTCCAACACCTTTCT
1 AACTT-GTTGGTACATATGGTTTCATCTTGGCCAACACCTTTCT
* *
2514029 AACTTGTTGGTACATATGGTTTCATCTTGGCAAACACCCTTCT
1 AACTTGTTGGTACATATGGTTTCATCTTGGCCAACACCTTTCT
* ** * * * *
2514072 AAATCATTGGTTCGTATGGTTTCATCTCGGCCATCACCTTTCT
1 AACTTGTTGGTACATATGGTTTCATCTTGGCCAACACCTTTCT
** * * * * **
2514115 AACTCATTGGTACGTATGGTTTCATCCTGGTCAATACCCCTCT
1 AACTTGTTGGTACATATGGTTTCATCTTGGCCAACACCTTTCT
* * * * *
2514158 AACTTATTGCTACGTATGGTTTCATCTCGGCTAACACCTTT
1 AACTTGTTGGTACATATGGTTTCATCTTGGCCAACACCTTT
2514199 TCGACTTGTT
Statistics
Matches: 170, Mismatches: 39, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
40 3 0.02
41 25 0.15
42 4 0.02
43 135 0.79
44 3 0.02
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (43 bp):
AACTTGTTGGTACATATGGTTTCATCTTGGCCAACACCTTTCT
Found at i:2514049 original size:43 final size:43
Alignment explanation
Indices: 2513992--2514198 Score: 236
Period size: 43 Copynumber: 4.8 Consensus size: 43
2513982 TTTTCCTTCG
* * **
2513992 TTGGTACATATGGTTTCATCTCGTCCAACACCTTTCTAACTTG
1 TTGGTACGTATGGTTTCATCTCGGCCAACACCTTTCTAACTCA
* * * * *
2514035 TTGGTACATATGGTTTCATCTTGGCAAACACCCTTCTAAATCA
1 TTGGTACGTATGGTTTCATCTCGGCCAACACCTTTCTAACTCA
* *
2514078 TTGGTTCGTATGGTTTCATCTCGGCCATCACCTTTCTAACTCA
1 TTGGTACGTATGGTTTCATCTCGGCCAACACCTTTCTAACTCA
* * ** *
2514121 TTGGTACGTATGGTTTCATC-CTGGTCAATACCCCTCTAACTTA
1 TTGGTACGTATGGTTTCATCTC-GGCCAACACCTTTCTAACTCA
* *
2514164 TTGCTACGTATGGTTTCATCTCGGCTAACACCTTT
1 TTGGTACGTATGGTTTCATCTCGGCCAACACCTTT
2514199 TCGACTTGTT
Statistics
Matches: 135, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 133 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (43 bp):
TTGGTACGTATGGTTTCATCTCGGCCAACACCTTTCTAACTCA
Found at i:2514217 original size:86 final size:88
Alignment explanation
Indices: 2514000--2514235 Score: 286
Period size: 86 Copynumber: 2.7 Consensus size: 88
2513990 CGTTGGTACA
* * *
2514000 TATGGTTTCATCTCGTCCAACACCTTTCTAACTTGTTGGTACATATGGTTTCATCTTGG-CAA-A
1 TATGGTTTCATCTCGGCCAACACCTTTCTAACTTGTTGGTACGTATGGTTTCATCCTGGTCAATA
* *
2514063 CACCCTTCTAAATCATTGGTTCG
66 CACCCTTCTAAATCATTGCTACG
* **
2514086 TATGGTTTCATCTCGGCCATCACCTTTCTAACTCATTGGTACGTATGGTTTCATCCTGGTCAATA
1 TATGGTTTCATCTCGGCCAACACCTTTCTAACTTGTTGGTACGTATGGTTTCATCCTGGTCAATA
* *
2514151 C-CCC-TCTAACTTATTGCTACG
66 CACCCTTCTAAATCATTGCTACG
* * * *
2514172 TATGGTTTCATCTCGGCTAACACCTTT-TCGACTTGTTGACT-CGTATGGTTTCATCCTAGTCAA
1 TATGGTTTCATCTCGGCCAACACCTTTCT-AACTTGTTG-GTACGTATGGTTTCATCCTGGTCAA
2514235 T
64 T
2514236 TTTCTTCTAT
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.01
86 119 0.92
87 7 0.05
88 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (88 bp):
TATGGTTTCATCTCGGCCAACACCTTTCTAACTTGTTGGTACGTATGGTTTCATCCTGGTCAATA
CACCCTTCTAAATCATTGCTACG
Found at i:2514335 original size:38 final size:37
Alignment explanation
Indices: 2514293--2514598 Score: 139
Period size: 38 Copynumber: 7.8 Consensus size: 37
2514283 TTATTGACTG
* * *
2514293 TGGTTTCATCTCGGTCAACTTTCCTTTGTTGGCTCATA
1 TGGTTTCATC-CAGTCAACTTTCCTTCGTTGACTCATA
** * *
2514331 TGGTTTTGTCCCAGCCAACTATTTTCCTTCCTTGACTCATA
1 TGGTTTCAT-CCAGTCAAC---TTTCCTTCGTTGACTCATA
* * * * *
2514372 TGGTTTCATCCCCGTTAATTTTCTTTTGTT-AGCTCATA
1 TGGTTTCAT-CCAGTCAACTTTCCTTCGTTGA-CTCATA
* * * *
2514410 TGGTTTCGTCCTAGCCAGCACTTTTCCTTCATTGACTTATA
1 TGGTTTCATCC-AGTCA--AC-TTTCCTTCGTTGACTCATA
** * * *
2514451 TGGTTTTGTCTCAATCAACTTTCCTTCATTGACTCGTA
1 TGGTTTCATC-CAGTCAACTTTCCTTCGTTGACTCATA
* ** *
2514489 TGGTTTCGTCCTAGTCAACTTTTTTTTGTTCG-CTCATA
1 TGGTTTCATCC-AGTCAACTTTCCTTCGTT-GACTCATA
* * * *
2514527 TGGTTTCATCTCGGCCAACACTTTTCCTTCATTGACTCGTA
1 TGGTTTCATC-CAGTC-A-AC-TTTCCTTCGTTGACTCATA
* * *
2514568 TAGTTTCATCCTGGTCAACTTTCCTTTGTTG
1 TGGTTTCATCC-AGTCAACTTTCCTTCGTTG
2514599 GTATGTATGG
Statistics
Matches: 200, Mismatches: 49, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
37 4 0.02
38 102 0.51
39 8 0.04
40 6 0.03
41 78 0.39
42 2 0.01
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.45
Consensus pattern (37 bp):
TGGTTTCATCCAGTCAACTTTCCTTCGTTGACTCATA
Found at i:2514370 original size:41 final size:40
Alignment explanation
Indices: 2514325--2514574 Score: 156
Period size: 38 Copynumber: 6.3 Consensus size: 40
2514315 CCTTTGTTGG
* *
2514325 CTCATATGGTTTTGTCCCAGCCAACTATTTTCCTTCCTTGA
1 CTCATATGGTTTCGTCCCAGCCAAC-ATTTTCCTTCATTGA
* * ** * **
2514366 CTCATATGGTTTCATCCCCG-TTA-ATTTTCTTTTGTT-A
1 CTCATATGGTTTCGTCCCAGCCAACATTTTCCTTCATTGA
* *
2514403 GCTCATATGGTTTCGTCCTAGCCAGCACTTTTCCTTCATTGA
1 -CTCATATGGTTTCGTCCCAGCCAACA-TTTTCCTTCATTGA
* * * **
2514445 CTTATATGGTTTTGTCTCAATCAAC--TTTCCTTCATTGA
1 CTCATATGGTTTCGTCCCAGCCAACATTTTCCTTCATTGA
* * * * **
2514483 CTCGTATGGTTTCGTCCTAGTCAAC-TTTT-TTTTGTTCG-
1 CTCATATGGTTTCGTCCCAGCCAACATTTTCCTTCATT-GA
* * *
2514521 CTCATATGGTTTCATCTCGGCCAACACTTTTCCTTCATTGA
1 CTCATATGGTTTCGTCCCAGCCAACA-TTTTCCTTCATTGA
* *
2514562 CTCGTATAGTTTC
1 CTCATATGGTTTC
2514575 ATCCTGGTCA
Statistics
Matches: 154, Mismatches: 44, Indels: 22
0.70 0.20 0.10
Matches are distributed among these distances:
37 1 0.01
38 82 0.53
39 4 0.03
40 7 0.05
41 59 0.38
42 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (40 bp):
CTCATATGGTTTCGTCCCAGCCAACATTTTCCTTCATTGA
Found at i:2514408 original size:79 final size:79
Alignment explanation
Indices: 2514293--2514456 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 79
2514283 TTATTGACTG
* * * *
2514293 TGGTTTCATCTCGGTCAACTTTCCTTTGTTGGCTCATATGGTTTTGTCCCAGCCAACTA-TTTTC
1 TGGTTTCATCCCCGTCAACTTTCCTTTGTTAGCTCATATGGTTTCGTCCCAGCCAAC-ACTTTTC
*
2514357 CTTCCTTGACTCATA
65 CTTCATTGACTCATA
* * * * *
2514372 TGGTTTCATCCCCGTTAATTTTCTTTTGTTAGCTCATATGGTTTCGTCCTAGCCAGCACTTTTCC
1 TGGTTTCATCCCCGTCAACTTTCCTTTGTTAGCTCATATGGTTTCGTCCCAGCCAACACTTTTCC
*
2514437 TTCATTGACTTATA
66 TTCATTGACTCATA
2514451 TGGTTT
1 TGGTTT
2514457 TGTCTCAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 1 0.01
79 72 0.99
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.45
Consensus pattern (79 bp):
TGGTTTCATCCCCGTCAACTTTCCTTTGTTAGCTCATATGGTTTCGTCCCAGCCAACACTTTTCC
TTCATTGACTCATA
Found at i:2514414 original size:117 final size:115
Alignment explanation
Indices: 2514293--2514573 Score: 289
Period size: 117 Copynumber: 2.4 Consensus size: 115
2514283 TTATTGACTG
* ** * *
2514293 TGGTTTCATCTCGGTCAAC-TTTCCTTTGTTGGCTCATATGGTTTTGTCCCAGCCAACTATTTTC
1 TGGTTTCATCTCGGCCAACTTTTCCTTCATTGACTCATATGGTTTTGTCCCAACCAAC---TTTC
* * *
2514357 CTTCCTTGACTCATATGGTTTCATCCCCGTTAA-TTTTCTTTTGTTAGCTCATA
63 CTTCATTGACTCATATGGTTTCATCCCAGTCAACTTTT-TTTTGTTAGCTCATA
* * * * *
2514410 TGGTTTCGTC-CTAGCCAGCACTTTTCCTTCATTGACTTATATGGTTTTGTCTCAATCAACTTTC
1 TGGTTTCATCTC-GGCCA--ACTTTTCCTTCATTGACTCATATGGTTTTGTCCCAACCAACTTTC
* * * *
2514474 CTTCATTGACTCGTATGGTTTCGTCCTAGTCAACTTTTTTTTGTTCGCTCATA
63 CTTCATTGACTCATATGGTTTCATCCCAGTCAACTTTTTTTTGTTAGCTCATA
* *
2514527 TGGTTTCATCTCGGCCAACACTTTTCCTTCATTGACTCGTATAGTTT
1 TGGTTTCATCTCGGCC-A-ACTTTTCCTTCATTGACTCATATGGTTT
2514574 CATCCTGGTC
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
116 1 0.01
117 95 0.70
118 6 0.04
119 2 0.01
120 31 0.23
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.45
Consensus pattern (115 bp):
TGGTTTCATCTCGGCCAACTTTTCCTTCATTGACTCATATGGTTTTGTCCCAACCAACTTTCCTT
CATTGACTCATATGGTTTCATCCCAGTCAACTTTTTTTTGTTAGCTCATA
Found at i:2514607 original size:117 final size:118
Alignment explanation
Indices: 2514353--2514624 Score: 277
Period size: 117 Copynumber: 2.3 Consensus size: 118
2514343 AGCCAACTAT
* * ** **
2514353 TTTCCTTCCTTGACTCATATGGTTTCATCCCCGTTAA-TTTTCTTTTGTTAGCTCATATGGTTTC
1 TTTCCTTCATTGACTCGTATGGTTTCATCCTAGCCAACTTTTCTTTTGTTAGCTCATATGGTTTC
* * * * **
2514417 GTCCTAGCCAGCACTTTTCCTTCATTGACTTATATGGTTTTGTCTCAATCAAC
66 ATCCTAGCCAACACTTTTCCTTCATTGACTCATATAGTTTCATCTCAATCAAC
* * *
2514470 TTTCCTTCATTGACTCGTATGGTTTCGTCCTAGTCAACTTTT-TTTTGTTCGCTCATATGGTTTC
1 TTTCCTTCATTGACTCGTATGGTTTCATCCTAGCCAACTTTTCTTTTGTTAGCTCATATGGTTTC
* * **
2514534 AT-CTCGGCCAACACTTTTCCTTCATTGACTCGTATAGTTTCATC-CTGGTCAAC
66 ATCCT-AGCCAACACTTTTCCTTCATTGACTCATATAGTTTCATCTC-AATCAAC
**
2514587 TTTCCTTTGTTGGTA-T-GTATGGTTTCATCCTAGCCAAC
1 TTTCCTTCATT-G-ACTCGTATGGTTTCATCCTAGCCAAC
2514625 ACTTTCTCAC
Statistics
Matches: 129, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
116 3 0.02
117 119 0.92
118 6 0.05
119 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (118 bp):
TTTCCTTCATTGACTCGTATGGTTTCATCCTAGCCAACTTTTCTTTTGTTAGCTCATATGGTTTC
ATCCTAGCCAACACTTTTCCTTCATTGACTCATATAGTTTCATCTCAATCAAC
Found at i:2514608 original size:79 final size:79
Alignment explanation
Indices: 2514470--2514629 Score: 209
Period size: 79 Copynumber: 2.0 Consensus size: 79
2514460 CTCAATCAAC
* * **
2514470 TTTCCTTCATTGACTCGTATGGTTTCGTCCTAGTCAACTTTTTTTTGTTCGCTCATATGGTTTCA
1 TTTCCTTCATTGACTCGTATAGTTTCATCCTAGTCAACTTTCCTTTGTTCGCTCATATGGTTTCA
*
2514535 T-CTCGGCCAACACT
66 TCCT-AGCCAACACT
* *
2514549 TTTCCTTCATTGACTCGTATAGTTTCATCCTGGTCAACTTTCCTTTGTT-GGT-ATGTATGGTTT
1 TTTCCTTCATTGACTCGTATAGTTTCATCCTAGTCAACTTTCCTTTGTTCGCTCA--TATGGTTT
2514612 CATCCTAGCCAACACT
64 CATCCTAGCCAACACT
2514628 TT
1 TT
2514630 CTCACTCGTT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 2 0.03
79 66 0.93
80 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.44
Consensus pattern (79 bp):
TTTCCTTCATTGACTCGTATAGTTTCATCCTAGTCAACTTTCCTTTGTTCGCTCATATGGTTTCA
TCCTAGCCAACACT
Found at i:2514650 original size:42 final size:43
Alignment explanation
Indices: 2514593--2514867 Score: 256
Period size: 43 Copynumber: 6.4 Consensus size: 43
2514583 CAACTTTCCT
* * *
2514593 TTGTTGGTATGTATGGTTTCATCCTAGCCAACA-CTTTCTCAC
1 TTGTTGGTACGTATGGTTTCATCCTGGCCAACACCTTTCTAAC
* * *
2514635 TCGTTGGTACATATGGTTTCGT-CTCGGCCAACACCTTT-TAAC
1 TTGTTGGTACGTATGGTTTCATCCT-GGCCAACACCTTTCTAAC
* * * * * * *
2514677 TTATTGGTATGTATGGTTTCATCTTGACCAATACCCTTCTTAC
1 TTGTTGGTACGTATGGTTTCATCCTGGCCAACACCTTTCTAAC
** *
2514720 TTGTTGGTACGTATGGTTTTGTTCC-GGCTAACACCTTTCTAAC
1 TTGTTGGTACGTATGG-TTTCATCCTGGCCAACACCTTTCTAAC
* *
2514763 TTGTTGGTACATATGGTTTCATCCTGGCCAACATGC-TTCTAAC
1 TTGTTGGTACGTATGGTTTCATCCTGGCCAACA-CCTTTCTAAC
** * *
2514806 TCATTGGTACGTATGGCTTTC-TCCTAGCCAACACCCTTCTAAC
1 TTGTTGGTACGTATGG-TTTCATCCTGGCCAACACCTTTCTAAC
* *
2514849 TTGTTGGTTCATATGGTTT
1 TTGTTGGTACGTATGGTTT
2514868 TGTAGACACT
Statistics
Matches: 184, Mismatches: 40, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.01
42 65 0.35
43 107 0.58
44 10 0.05
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (43 bp):
TTGTTGGTACGTATGGTTTCATCCTGGCCAACACCTTTCTAAC
Found at i:2514802 original size:86 final size:83
Alignment explanation
Indices: 2514593--2514867 Score: 282
Period size: 86 Copynumber: 3.2 Consensus size: 83
2514583 CAACTTTCCT
** * * * *
2514593 TTGTTGGTATGTATGGTTTCATCCTAGCCAACACTTTCTCACTCGTTGGTACATATGGTTTCGTC
1 TTGTTGGTACATATGGTTTCATCCTGGCCAACAC-TTCTAACTCGTTGGTACGTATGGTTTTGTC
2514658 TCGGCCAACACCTTT-TAAC
65 -CGGCCAACACCTTTCTAAC
* ** * * * * *
2514677 TTATTGGTATGTATGGTTTCATCTTGACCAATACCCTTCTTACTTGTTGGTACGTATGGTTTTGT
1 TTGTTGGTACATATGGTTTCATCCTGGCC-A-ACACTTCTAACTCGTTGGTACGTATGGTTTTG-
*
2514742 TCCGGCTAACACCTTTCTAAC
63 TCCGGCCAACACCTTTCTAAC
* * *
2514763 TTGTTGGTACATATGGTTTCATCCTGGCCAACATGCTTCTAACTCATTGGTACGTATGGCTTTCT
1 TTGTTGGTACATATGGTTTCATCCTGGCCAACA--CTTCTAACTCGTTGGTACGTATGGTTTTGT
* *
2514828 CCTAGCCAACACCCTTCTAAC
64 CC-GGCCAACACCTTTCTAAC
*
2514849 TTGTTGGTTCATATGGTTT
1 TTGTTGGTACATATGGTTT
2514868 TGTAGACACT
Statistics
Matches: 159, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
84 27 0.17
85 42 0.26
86 90 0.57
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (83 bp):
TTGTTGGTACATATGGTTTCATCCTGGCCAACACTTCTAACTCGTTGGTACGTATGGTTTTGTCC
GGCCAACACCTTTCTAAC
Found at i:2514852 original size:129 final size:127
Alignment explanation
Indices: 2514622--2514870 Score: 324
Period size: 129 Copynumber: 1.9 Consensus size: 127
2514612 CATCCTAGCC
* * * * *
2514622 AACACTTTCTCACTCGTTGGTACATATGGTTTCGTCTCGGCCAACACCTTTTAACTTATTGGTAT
1 AACACTTTCTAACTCGTTGGTACATATGGTTTCATCTCGGCCAACACCTTCTAACTCATTGGTAC
* * * *
2514687 GTATGGTTTCATCTTGACCAATACCCTTCTTACTTGTTGGTACGTATGGTTTTGTTCCGGCT
66 GTATGGTTTCATCTAGACCAACACCCTTCTAACTTGTTGGTACATATGGTTTTGTTCCGGCT
* *
2514749 AACACCTTTCTAACTTGTTGGTACATATGGTTTCATC-CTGGCCAACATGCTTCTAACTCATTGG
1 AACA-CTTTCTAACTCGTTGGTACATATGGTTTCATCTC-GGCCAACA-CCTTCTAACTCATTGG
*
2514813 TACGTATGGCTTTC-TCCTAG-CCAACACCCTTCTAACTTGTTGGTTCATATGGTTTTGT
63 TACGTATGG-TTTCAT-CTAGACCAACACCCTTCTAACTTGTTGGTACATATGGTTTTGT
2514871 AGACACTTCA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
127 5 0.05
128 37 0.35
129 56 0.53
130 7 0.07
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (127 bp):
AACACTTTCTAACTCGTTGGTACATATGGTTTCATCTCGGCCAACACCTTCTAACTCATTGGTAC
GTATGGTTTCATCTAGACCAACACCCTTCTAACTTGTTGGTACATATGGTTTTGTTCCGGCT
Found at i:2515193 original size:13 final size:13
Alignment explanation
Indices: 2515175--2515199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2515165 CATAAAGTGT
2515175 TGTATCGATACAA
1 TGTATCGATACAA
2515188 TGTATCGATACA
1 TGTATCGATACA
2515200 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2515215 original size:32 final size:33
Alignment explanation
Indices: 2515155--2515220 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2515145 TTCAACGATT
2515155 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2515188 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2515220 T
1 T
2515221 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2515258 original size:13 final size:13
Alignment explanation
Indices: 2515240--2515264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2515230 TGCCAAAAAA
2515240 TGTATCGATACAT
1 TGTATCGATACAT
2515253 TGTATCGATACA
1 TGTATCGATACA
2515265 CTAATCTTTG
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:2515331 original size:52 final size:52
Alignment explanation
Indices: 2515273--2515401 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2515263 CACTAATCTT
*
2515273 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2515325 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2515377 TGTATCGATACATGCAGGAAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2515402 CCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2517528 original size:24 final size:26
Alignment explanation
Indices: 2517501--2517552 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2517491 TATCAAAATT
2517501 CATTCAT-C-GGGGACACTCCAACCC
1 CATTCATCCAGGGGACACTCCAACCC
*
2517525 CATTCTTCCGAGGGGACACTCCAACCC
1 CATTCATCC-AGGGGACACTCCAACCC
2517552 C
1 C
2517553 GTTTTCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 1 0.04
27 17 0.71
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.17
Consensus pattern (26 bp):
CATTCATCCAGGGGACACTCCAACCC
Found at i:2524313 original size:24 final size:26
Alignment explanation
Indices: 2524286--2524337 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2524276 TATCAAAATT
2524286 CATTCAT-C-GGGGACACTCCAACCC
1 CATTCATCCAGGGGACACTCCAACCC
*
2524310 CATTCCTCCGAGGGGACACTCCAACCC
1 CATTCATCC-AGGGGACACTCCAACCC
2524337 C
1 C
2524338 GTTTTCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 1 0.04
27 17 0.71
ACGTcount: A:0.23, C:0.44, G:0.17, T:0.15
Consensus pattern (26 bp):
CATTCATCCAGGGGACACTCCAACCC
Found at i:2525329 original size:43 final size:42
Alignment explanation
Indices: 2525242--2525374 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
2525232 CGTTACGACA
***
2525242 GGTTTCA-TCTCAGCCAACA-CCTTTCTAACTTGTTGGTACATAT
1 GGTTTCATTCT-AGCCAACACCCTTT-TAA-TTGTTGGTTTGTAT
*
2525285 GGTTTCATTCTAGCTAACACCCTTTTAAGTTGTTGGTTTGTAT
1 GGTTTCATTCTAGCCAACACCCTTTTAA-TTGTTGGTTTGTAT
** * * * *
2525328 GGTTTTGTCCTGGCCAACACCATTCTAATTCGTTGGTTTGTAT
1 GGTTTCATTCTAGCCAACACCCTTTTAATT-GTTGGTTTGTAT
2525371 GGTT
1 GGTT
2525375 CCGTCCTGGC
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.03
43 65 0.87
44 8 0.11
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (42 bp):
GGTTTCATTCTAGCCAACACCCTTTTAATTGTTGGTTTGTAT
Found at i:2525381 original size:43 final size:43
Alignment explanation
Indices: 2525316--2525662 Score: 176
Period size: 43 Copynumber: 8.0 Consensus size: 43
2525306 CTTTTAAGTT
** *
2525316 GTTGGTTTGTATGGTTTTGTCCTGGCCAACACCATTCTAATTC
1 GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACTC
* *
2525359 GTTGGTTTGTATGGTTCCGTCCTGGCCAACTCCTTTCTAACTC
1 GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACTC
* ** * * **
2525402 GTTGGTTTGTAAGGCTT-TATCCCGGCCAATACTTTTCTAACTC
1 GTTGGTTTGTATGG-TTCCGTCCTGGCCAACACCATTCTAACTC
* * * ** ** * * * * **
2525445 ATTGGTATGCATTATTTTGTCCCGACTAATACTTTTCTAACTAAC
1 GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACT--C
* * * * * *
2525490 TTGTTGGTTTGCATGGTTTCG-CCTTAGCCAACACCCTTCTAATTT
1 --GTTGGTTTGTATGGTTCCGTCC-TGGCCAACACCATTCTAACTC
* *** *
2525535 GTTGGTTTGTATGGTTCAGTCCCAACCAACACCCTTCTAACTC
1 GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACTC
* * ** * * *
2525578 ATTGGTTCGTATGGTTTTGACTTGGCCAACACCCTTCTAACTC
1 GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACTC
* * * * * * *
2525621 ATTGGTATGCATGGTTTCATCTTGGCCAACACCTTTCTAACT
1 GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACT
2525663 AACTTATTGG
Statistics
Matches: 238, Mismatches: 58, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
42 2 0.01
43 203 0.85
44 4 0.02
45 1 0.00
46 2 0.01
47 26 0.11
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (43 bp):
GTTGGTTTGTATGGTTCCGTCCTGGCCAACACCATTCTAACTC
Found at i:2525406 original size:86 final size:86
Alignment explanation
Indices: 2525316--2525662 Score: 264
Period size: 86 Copynumber: 4.0 Consensus size: 86
2525306 CTTTTAAGTT
* * * * *
2525316 GTTGGTTTGTATGGTTTTGTCCTGGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCCGTCC
1 GTTGGTTTGTATGGTTTTGTCCTGGCCAACACCCTTCTAACTCATTGGTATGCATGGTTCCGTCC
* * *
2525381 TGGCCAACTCCTTTCTAACTC
66 CGACCAACACCTTTCTAACTC
* * * * * ** ** **
2525402 GTTGGTTTGTAAGGCTTTATCCCGGCCAATACTTTTCTAACTCATTGGTATGCATTATTTTGTCC
1 GTTGGTTTGTATGGTTTTGTCCTGGCCAACACCCTTCTAACTCATTGGTATGCATGGTTCCGTCC
* * *
2525467 CGACTAATACTTTTCTAACTAAC
66 CGACCAACACCTTTCTAACT--C
* * * * ** * * *
2525490 TTGTTGGTTTGCATGGTTTCG-CCTTAGCCAACACCCTTCTAATTTGTTGGTTTGTATGGTTCAG
1 --GTTGGTTTGTATGGTTTTGTCC-TGGCCAACACCCTTCTAACTCATTGGTATGCATGGTTCCG
* *
2525554 TCCCAACCAACACCCTTCTAACTC
63 TCCCGACCAACACCTTTCTAACTC
* * * * * * *
2525578 ATTGGTTCGTATGGTTTTGACTTGGCCAACACCCTTCTAACTCATTGGTATGCATGGTTTCATCT
1 GTTGGTTTGTATGGTTTTGTCCTGGCCAACACCCTTCTAACTCATTGGTATGCATGGTTCCGTCC
* *
2525643 TGGCCAACACCTTTCTAACT
66 CGACCAACACCTTTCTAACT
2525663 AACTTATTGG
Statistics
Matches: 191, Mismatches: 64, Indels: 12
0.72 0.24 0.04
Matches are distributed among these distances:
86 128 0.67
87 1 0.01
88 2 0.01
89 2 0.01
90 58 0.30
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (86 bp):
GTTGGTTTGTATGGTTTTGTCCTGGCCAACACCCTTCTAACTCATTGGTATGCATGGTTCCGTCC
CGACCAACACCTTTCTAACTC
Found at i:2525618 original size:176 final size:176
Alignment explanation
Indices: 2525314--2525632 Score: 426
Period size: 176 Copynumber: 1.8 Consensus size: 176
2525304 CCCTTTTAAG
* * * *
2525314 TTGTTGGTTTGTATGGTTTTGTCCTGGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCCGT
1 TTGTTGGTTTGCATGGTTTCGTCCTAGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCAGT
*** * * * * * **
2525379 CCTGGCCAACTCCTTTCTAACTCGTTGGTTTGTAAGGCTTTATCCCGGCCAATACTTTTCTAACT
66 CCCAACCAACACCCTTCTAACTCATTGGTTCGTAAGGCTTTATCCCGGCCAACACCCTTCTAACT
2525444 CATTGGTATGCATTATTTTGTCCCGACTAATACTTTTCTAACTAAC
131 CATTGGTATGCATTATTTTGTCCCGACTAATACTTTTCTAACTAAC
* *
2525490 TTGTTGGTTTGCATGGTTTCG-CCTTAGCCAACACCCTTCTAATTTGTTGGTTTGTATGGTTCAG
1 TTGTTGGTTTGCATGGTTTCGTCC-TAGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCAG
* * **
2525554 TCCCAACCAACACCCTTCTAACTCATTGGTTCGTATGGTTTTGA-CTTGGCCAACACCCTTCTAA
65 TCCCAACCAACACCCTTCTAACTCATTGGTTCGTAAGGCTTT-ATCCCGGCCAACACCCTTCTAA
2525618 CTCATTGGTATGCAT
129 CTCATTGGTATGCAT
2525633 GGTTTCATCT
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
175 2 0.02
176 118 0.98
177 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (176 bp):
TTGTTGGTTTGCATGGTTTCGTCCTAGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCAGT
CCCAACCAACACCCTTCTAACTCATTGGTTCGTAAGGCTTTATCCCGGCCAACACCCTTCTAACT
CATTGGTATGCATTATTTTGTCCCGACTAATACTTTTCTAACTAAC
Found at i:2525660 original size:176 final size:176
Alignment explanation
Indices: 2525314--2525674 Score: 411
Period size: 176 Copynumber: 2.1 Consensus size: 176
2525304 CCCTTTTAAG
* * * *
2525314 TTGTTGGTTTGTATGGTTTTGTCCTGGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCCGT
1 TTGTTGGTTTGCATGGTTTCGTCCTAGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCAGT
*** * * * * * **
2525379 CCTGGCCAACTCCTTTCTAACTCGTTGGTTTGTAAGGCTTTATCCCGGCCAATACTTTTCTAACT
66 CCCAACCAACACCCTTCTAACTCATTGGTTCGTAAGGCTTTATCCCGGCCAACACCCTTCTAACT
* ** * * *
2525444 CATTGGTATGCATTATTTTGTCCCGACTAATACTTTTCTAACTAAC
131 CATTGGTATGCATGATTTCATCCCGACCAACACCTTTCTAACTAAC
* *
2525490 TTGTTGGTTTGCATGGTTTCG-CCTTAGCCAACACCCTTCTAATTTGTTGGTTTGTATGGTTCAG
1 TTGTTGGTTTGCATGGTTTCGTCC-TAGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCAG
* * **
2525554 TCCCAACCAACACCCTTCTAACTCATTGGTTCGTATGGTTTTGA-CTTGGCCAACACCCTTCTAA
65 TCCCAACCAACACCCTTCTAACTCATTGGTTCGTAAGGCTTT-ATCCCGGCCAACACCCTTCTAA
* ** *
2525618 CTCATTGGTATGCATGGTTTCATCTTGGCCAACACCTTTCTAACTAAC
129 CTCATTGGTATGCATGATTTCATCCCGACCAACACCTTTCTAACTAAC
*
2525666 TTATTGGTT
1 TTGTTGGTT
2525675 CGTGTGGTTT
Statistics
Matches: 152, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
175 2 0.01
176 149 0.98
177 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (176 bp):
TTGTTGGTTTGCATGGTTTCGTCCTAGCCAACACCATTCTAATTCGTTGGTTTGTATGGTTCAGT
CCCAACCAACACCCTTCTAACTCATTGGTTCGTAAGGCTTTATCCCGGCCAACACCCTTCTAACT
CATTGGTATGCATGATTTCATCCCGACCAACACCTTTCTAACTAAC
Found at i:2525683 original size:47 final size:45
Alignment explanation
Indices: 2525560--2525684 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 45
2525550 TCAGTCCCAA
*
2525560 CCAACACCCTTCTAACT--C-ATTGGTTCGTATGGTTTTGACTTGG
1 CCAACACCCTTCTAACTAACTATTGGTTCGTATGG-TTTCACTTGG
*
2525603 CCAACACCCTTCTAACT--C-ATTGGTAT-GCATGGTTTCATCTTGG
1 CCAACACCCTTCTAACTAACTATTGGT-TCGTATGGTTTCA-CTTGG
* *
2525646 CCAACACCTTTCTAACTAACTTATTGGTTCGTGTGGTTT
1 CCAACACCCTTCTAACTAAC-TATTGGTTCGTATGGTTT
2525685 TGCCCAGCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
42 4 0.06
43 50 0.71
44 1 0.01
45 1 0.01
46 1 0.01
47 13 0.19
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (45 bp):
CCAACACCCTTCTAACTAACTATTGGTTCGTATGGTTTCACTTGG
Found at i:2525765 original size:41 final size:41
Alignment explanation
Indices: 2525697--2525985 Score: 274
Period size: 41 Copynumber: 7.0 Consensus size: 41
2525687 CCCAGCTAAT
* * * * * *
2525697 ATCTCAACTTTTGTTGACGTAAAGGTTTCGCCCTAGTCAAC
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
*** *
2525738 ATCTCACCCTTTGTTGATGTGATGGTTTCATTTTGGTCAAC
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
* ** * *
2525779 ATCTCACCCTTTGTTGATGTAATGGTTT-TGCCTTGATCAATAT
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAG-TC-A-AC
* **
2525822 ATCTCACCCCTTGTTGATGTGATGGTTTTGCCCTAGTCAAC
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
* * * *
2525863 ATCTGACCCGTCGTTGATATGATGGTTTCACCCTAGTCAAC
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
* * * *
2525904 ATCTCACCCTTTATTAATGTGTTGGTTTCACACTAGTCAAC
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
* ** *
2525945 ATCTCACTCTTTGTTGACATGATGGTTTCATCCTAGTCAAC
1 ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
2525986 TTCTTTTCAA
Statistics
Matches: 199, Mismatches: 45, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
40 2 0.01
41 162 0.81
42 2 0.01
43 29 0.15
44 4 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (41 bp):
ATCTCACCCTTTGTTGATGTGATGGTTTCACCCTAGTCAAC
Found at i:2527306 original size:131 final size:130
Alignment explanation
Indices: 2527072--2527316 Score: 364
Period size: 131 Copynumber: 1.9 Consensus size: 130
2527062 CTGATAAGAT
* *
2527072 TTTTCTAAATTTATAATTTCTAAAATTCTTCTAATATTATTTTTAATTCATATTAAATCAATTTT
1 TTTTCTAAATTTATAATTTCTAAAATTCTTCAAATATTATTTTTAATTCATAGTAAATCAATTTT
* * ** *
2527137 GAAAATTTCAATTCATTTTATGAGTTTTAAAATTTTTTCTGTTACCAAACTTTACTCAAAAGGAC
66 GAAAATTTCAATTCATTTTATAAGTTTCAAAAAATTTTCTATTACCAAACTTTACTCAAAAGGAC
* * *
2527202 TTTTCTAAATTTATAATTTCTAAAATTCTTCAAATATTATTGTTTAATTTATAGTAAATTAGTTT
1 TTTTCTAAATTTATAATTTCTAAAATTCTTCAAATATTATT-TTTAATTCATAGTAAATCAATTT
* * *
2527267 TGAAAATTTTAATTTATTTTATAAGTTTCAAAAAATTTTCTATTATCAAA
65 TGAAAATTTCAATTCATTTTATAAGTTTCAAAAAATTTTCTATTACCAAA
2527317 ATGTGGATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 40 0.40
131 61 0.60
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (130 bp):
TTTTCTAAATTTATAATTTCTAAAATTCTTCAAATATTATTTTTAATTCATAGTAAATCAATTTT
GAAAATTTCAATTCATTTTATAAGTTTCAAAAAATTTTCTATTACCAAACTTTACTCAAAAGGAC
Found at i:2527558 original size:153 final size:152
Alignment explanation
Indices: 2527196--2527602 Score: 433
Period size: 153 Copynumber: 2.7 Consensus size: 152
2527186 CTTTACTCAA
* * * * *
2527196 AAGGACTTTTCTAAATTTATAATTTCTAAAATTCTTCAAATATTATTGTTTAATTTATAGTAAAT
1 AAGGAGTTTTCTAAATTTATAATTTTTAAAATTCTTCAAATATTATT-ATTAATTCATATTAAAT
* * * * * *
2527261 TAGTTTTGAAAATTTTAATTTATTTTATAAGTTTCAAAAAATTTTCTATTATCAAAATGTGGATT
65 AAGTTTTGAAAAATTTAATTTATTTTATGAGTTT-TAAAAATTTTCTATTATCAAAATATAGATT
2527326 TTTCTACTCCGTAAATTTTTTCGG
129 TTTCTACTCCGTAAATTTTTTCGG
* * * *
2527350 AAGGAGTTTTCTAAATCTATAATTTTCAAAATTCTTCAAATATTGTTATCTAATTCCTATTAAAT
1 AAGGAGTTTTCTAAATTTATAATTTTTAAAATTCTTCAAATATTATTAT-TAATTCATATTAAAT
* * ** * * *
2527415 CAGTTTTGAAAAATTAAATTTATTTTATGAGTTTTAAATTTTTTTTGTT-TCCAAGATATAGAGT
65 AAGTTTTGAAAAATTTAATTTATTTTATGAGTTTTAAAAATTTTCTATTAT-CAAAATATAGA-T
* *
2527479 TTTT-TACTTCGTAAATTTTTTTGG
128 TTTTCTACTCCGTAAATTTTTTCGG
** * * * * * *
2527503 TTGGATTTTTCTCAGTTTAAAATTTTTAAAATTCATCAAATATTTTTATTAAATTCATATTAAAT
1 AAGGAGTTTTCTAAATTTATAATTTTTAAAATTCTTCAAATATTATTATT-AATTCATATTAAAT
*
2527568 AAGTTTGTG-AAAATTTAATCTATTTTATGAGTTTT
65 AAGTTT-TGAAAAATTTAATTTATTTTATGAGTTTT
2527603 GTTTTTTTTT
Statistics
Matches: 211, Mismatches: 37, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
152 2 0.01
153 118 0.56
154 91 0.43
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.50
Consensus pattern (152 bp):
AAGGAGTTTTCTAAATTTATAATTTTTAAAATTCTTCAAATATTATTATTAATTCATATTAAATA
AGTTTTGAAAAATTTAATTTATTTTATGAGTTTTAAAAATTTTCTATTATCAAAATATAGATTTT
TCTACTCCGTAAATTTTTTCGG
Found at i:2528511 original size:12 final size:13
Alignment explanation
Indices: 2528487--2528516 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2528477 ACTTTTCACT
2528487 ATGTATCGATACA
1 ATGTATCGATACA
2528500 ATGTAT-GATACA
1 ATGTATCGATACA
2528512 ATGTA
1 ATGTA
2528517 CCATATATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2529982 original size:29 final size:28
Alignment explanation
Indices: 2529949--2530028 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
2529939 ATATGAGTAG
* *
2529949 GTTAAAGATTTATTTAGTATAAATTAAAT
1 GTTAAAAATTTATTTAG-ATAAAATAAAT
*
2529978 GTTAAAAATTTATTTAGATAAAATAAAA
1 GTTAAAAATTTATTTAGATAAAATAAAT
* * *
2530006 GTATATAAATTTATCTAAATAAA
1 GT-TAAAAATTTATTTAGATAAA
2530029 TTAGTAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 11 0.25
29 33 0.75
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (28 bp):
GTTAAAAATTTATTTAGATAAAATAAAT
Found at i:2530984 original size:45 final size:46
Alignment explanation
Indices: 2530915--2531008 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 46
2530905 AAATGGGTCT
2530915 ATTTAAAATAAAATTCTGTCTGAAATCCTCTTGCCTCTTATTCTCA
1 ATTTAAAATAAAATTCTGTCTGAAATCCTCTTGCCTCTTATTCTCA
* * *
2530961 ATTT-AAATAAAGTTCTGTTTGAAATCCTCTTGTCTCTTATTCTCA
1 ATTTAAAATAAAATTCTGTCTGAAATCCTCTTGCCTCTTATTCTCA
2531006 ATT
1 ATT
2531009 CAGTCTTCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 41 0.91
46 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (46 bp):
ATTTAAAATAAAATTCTGTCTGAAATCCTCTTGCCTCTTATTCTCA
Found at i:2531069 original size:15 final size:15
Alignment explanation
Indices: 2531049--2531079 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2531039 ATGCTACATT
2531049 TTCTTTGATTTACTA
1 TTCTTTGATTTACTA
2531064 TTCTTTGATTTACTA
1 TTCTTTGATTTACTA
2531079 T
1 T
2531080 GTCTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (15 bp):
TTCTTTGATTTACTA
Found at i:2538721 original size:108 final size:108
Alignment explanation
Indices: 2538532--2538747 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
2538522 AGTGGTATCA
2538532 GCCATTTTCTTTTTGTACACAAAATCTTAGACTCATTTCTAAGGAAGTGTTGATTCTGTGTCTCA
1 GCCATTTTCTTTTTGTACACAAAATCTTAGACTCATTTCTAAGGAAGTGTTGATTCTGTGTCTCA
2538597 GTTTTCTGCTACCTGCATGCAAAGTTCTTTCATAACATATGCG
66 GTTTTCTGCTACCTGCATGCAAAGTTCTTTCATAACATATGCG
2538640 GCCATTTTCTTTTTGTACACAAAATCTTAGACTCATTTCTAAGGAAGTGTTGATTCTGTGTCTCA
1 GCCATTTTCTTTTTGTACACAAAATCTTAGACTCATTTCTAAGGAAGTGTTGATTCTGTGTCTCA
2538705 GTTTTCTGCTACCTGCATGCAAAGTTCTTTCATAACATATGCG
66 GTTTTCTGCTACCTGCATGCAAAGTTCTTTCATAACATATGCG
2538748 ACTTGCCACA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (108 bp):
GCCATTTTCTTTTTGTACACAAAATCTTAGACTCATTTCTAAGGAAGTGTTGATTCTGTGTCTCA
GTTTTCTGCTACCTGCATGCAAAGTTCTTTCATAACATATGCG
Found at i:2541856 original size:21 final size:19
Alignment explanation
Indices: 2541831--2541884 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
2541821 TTCTATAGTT
2541831 TGTATCGATACAAATAGTACA
1 TGTATCGATACAAA-AGT-CA
* * **
2541852 TGTATCAATACATAAGTTT
1 TGTATCGATACAAAAGTCA
2541871 TGTATCGATACAAA
1 TGTATCGATACAAA
2541885 GCTACCCTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 3 0.11
21 12 0.44
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAAGTCA
Found at i:2545884 original size:15 final size:15
Alignment explanation
Indices: 2545864--2545911 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
2545854 TAGACTTTTT
2545864 ATATTTTCAAATTAA
1 ATATTTTCAAATTAA
* *
2545879 ATATTTTGAAATTCA
1 ATATTTTCAAATTAA
*
2545894 TTATTTTCAAATTCAA
1 ATATTTTCAAATT-AA
2545910 AT
1 AT
2545912 TCATTCTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 24 0.92
16 2 0.08
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATTTTCAAATTAA
Found at i:2545899 original size:30 final size:34
Alignment explanation
Indices: 2545865--2545925 Score: 94
Period size: 30 Copynumber: 1.9 Consensus size: 34
2545855 AGACTTTTTA
2545865 TATTTTCAAATT-AAA-T-ATT-TTGAAATTCAT
1 TATTTTCAAATTCAAATTCATTCTTGAAATTCAT
2545895 TATTTTCAAATTCAAATTCATTCTTGAAATT
1 TATTTTCAAATTCAAATTCATTCTTGAAATT
2545926 TTTTCACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.44
31 3 0.11
32 1 0.04
33 3 0.11
34 8 0.30
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (34 bp):
TATTTTCAAATTCAAATTCATTCTTGAAATTCAT
Found at i:2550688 original size:52 final size:53
Alignment explanation
Indices: 2550604--2550735 Score: 137
Period size: 52 Copynumber: 2.5 Consensus size: 53
2550594 TTAAATATGT
* * * * *
2550604 GAAGAATGCCAATGTGCTGATTCACGACCAACGACATTAGACTT-GAA-GATGA
1 GAAGAATGCCAATGTACTAATTCAAGGCCAACGACATCAGACTTAGAATG-TGA
* * *
2550656 GAAGAATGCCAATGTACTAATTCAAGGTCAACGACATCAGGCTTAGGAATGTTA
1 GAAGAATGCCAATGTACTAATTCAAGGCCAACGACATCAGACTTA-GAATGTGA
*
2550710 -AAG-ATGCCAATATACTAATTCAAGGC
1 GAAGAATGCCAATGTACTAATTCAAGGC
2550736 TAGCGATATC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 58 0.87
53 3 0.04
54 5 0.07
55 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (53 bp):
GAAGAATGCCAATGTACTAATTCAAGGCCAACGACATCAGACTTAGAATGTGA
Found at i:2550977 original size:32 final size:33
Alignment explanation
Indices: 2550930--2551232 Score: 206
Period size: 32 Copynumber: 9.7 Consensus size: 33
2550920 TGGAAGAGGA
* * *
2550930 TGCCACCAACCTGTGTGGGCTTTTG-AGAAGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
** * *
2550962 TGTTACCAGCTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
* *
2550995 TGCCACCAACTTGTGTGGGCTTT-GAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
* * *
2551027 TTCCACCGACTTGTATGGGC-TT---AAAAGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
* * * *
2551056 TGCCATCGACTTGTATGGG-ATT----AAAGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
*
2551084 TGCCACTAACTTGTGTGGGCTTT-GAAAAAGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
** *** *
2551116 TGCCACTGACTTGTGTGGGCTTT-GAGGGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
* *** *
2551148 TG-TACCAACTTGTGTGGGCTTT-GAGGGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
* * * *
2551179 TGCCACTAACTTGTATCGGCTTT-GAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
2551211 TGCCACCAACTTGTGTGGGCTT
1 TGCCACCAACTTGTGTGGGCTT
2551233 AAAAGGATAA
Statistics
Matches: 223, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
28 21 0.09
29 26 0.12
31 30 0.13
32 121 0.54
33 25 0.11
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAAGAT
Found at i:2551182 original size:63 final size:64
Alignment explanation
Indices: 2550966--2551232 Score: 228
Period size: 63 Copynumber: 4.3 Consensus size: 64
2550956 GAAGATTGTT
* * * * * * *
2550966 ACCAGCTTGTGTGGGCTTTAGAAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTTCC
1 ACCAACTTGTGTGGGCTTT-GAAAAAGATTGCCACTAACTTGTATCGGCTTTGAAAAAGGTTGCC
* * * ** *
2551031 ACCGACTTGTATGGGC-TT--AAAAGATTGCCA-TCGACTTGTAT-GGGATT---AAAGATTGCC
1 ACCAACTTGTGTGGGCTTTGAAAAAGATTGCCACT-AACTTGTATCGGCTTTGAAAAAGGTTGCC
* * * * *** *
2551088 ACTAACTTGTGTGGGCTTTGAAAAAGATTGCCACTGACTTGTGTGGGCTTTGAGGGAGGTTG-T
1 ACCAACTTGTGTGGGCTTTGAAAAAGATTGCCACTAACTTGTATCGGCTTTGAAAAAGGTTGCC
*** *
2551151 ACCAACTTGTGTGGGCTTTGAGGGAGGTTGCCACTAACTTGTATCGGCTTTGAAAAAGGTTGCC
1 ACCAACTTGTGTGGGCTTTGAAAAAGATTGCCACTAACTTGTATCGGCTTTGAAAAAGGTTGCC
2551215 ACCAACTTGTGTGGGCTT
1 ACCAACTTGTGTGGGCTT
2551233 AAAAGGATAA
Statistics
Matches: 158, Mismatches: 34, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
57 20 0.13
58 2 0.01
60 24 0.15
61 23 0.15
63 51 0.32
64 25 0.16
65 13 0.08
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (64 bp):
ACCAACTTGTGTGGGCTTTGAAAAAGATTGCCACTAACTTGTATCGGCTTTGAAAAAGGTTGCC
Found at i:2551549 original size:52 final size:52
Alignment explanation
Indices: 2551475--2551576 Score: 125
Period size: 52 Copynumber: 2.0 Consensus size: 52
2551465 CAAATTGAAT
* * ***
2551475 TTAAAGATGATGAAAGTACCAACGTGCTGATTTGAGGCTAGCAACATTGGTC
1 TTAAAGATGATCAAAGTACCAACATGCTGATCCAAGGCTAGCAACATTGGTC
* *
2551527 TTAAAGATGA-CAAAGGTGCCAACATGCTGATCCAAGGTTAGCAACATTGG
1 TTAAAGATGATCAAA-GTACCAACATGCTGATCCAAGGCTAGCAACATTGG
2551577 AACGAAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 3 0.07
52 39 0.93
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
TTAAAGATGATCAAAGTACCAACATGCTGATCCAAGGCTAGCAACATTGGTC
Found at i:2552858 original size:11 final size:11
Alignment explanation
Indices: 2552844--2552909 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
2552834 TTTTTTCTTT
2552844 TTGTTTTTTTG
1 TTGTTTTTTTG
*
2552855 TTGTTTTTTTAA
1 TTGTTTTTTT-G
*
2552867 TTGTTTTTTGG
1 TTGTTTTTTTG
2552878 TTGTTTTTTTTG
1 TTG-TTTTTTTG
*
2552890 TT-TTGTTTTTC
1 TTGTT-TTTTTG
2552901 TT-TTTTTTT
1 TTGTTTTTTT
2552910 ACATACGAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
10 7 0.15
11 22 0.47
12 18 0.38
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.82
Consensus pattern (11 bp):
TTGTTTTTTTG
Found at i:2552870 original size:23 final size:23
Alignment explanation
Indices: 2552844--2552887 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2552834 TTTTTTCTTT
*
2552844 TTGTTTTTTTGTTGTTTTTTTAA
1 TTGTTTTTTGGTTGTTTTTTTAA
2552867 TTGTTTTTTGGTTGTTTTTTT
1 TTGTTTTTTGGTTGTTTTTTT
2552888 TGTTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.80
Consensus pattern (23 bp):
TTGTTTTTTGGTTGTTTTTTTAA
Found at i:2552898 original size:23 final size:21
Alignment explanation
Indices: 2552841--2552908 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
2552831 TCTTTTTTTC
2552841 TTTTTG-TTTTTTTGTTGTTT
1 TTTTTGTTTTTTTTGTTGTTT
**
2552861 TTTTAATTGTTTTTTGGTTGTTT
1 TTTTTGTT-TTTTTT-GTTGTTT
* *
2552884 TTTTTGTTTTGTTT-TTCTTT
1 TTTTTGTTTTTTTTGTTGTTT
2552904 TTTTT
1 TTTTT
2552909 TACATACGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 14 0.36
21 1 0.03
22 11 0.28
23 13 0.33
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.82
Consensus pattern (21 bp):
TTTTTGTTTTTTTTGTTGTTT
Found at i:2565255 original size:67 final size:67
Alignment explanation
Indices: 2565184--2565317 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
2565174 GTTGTATGAA
2565184 ATAATCCACTCAAAATAACAATGAAAAAATGAGGGACGATCGGAATATATCTCGTAATATCCTTG
1 ATAATCCACTCAAAATAACAATGAAAAAATGAGGGACGATCGGAATATATCTCGTAATATCCTTG
2565249 AT
66 AT
2565251 ATAATCCACTCAAAATAACAATGAAAAAATGAGGGACGATCGGAATATATCTCGTAATATCCTTG
1 ATAATCCACTCAAAATAACAATGAAAAAATGAGGGACGATCGGAATATATCTCGTAATATCCTTG
2565316 AT
66 AT
2565318 TATCCAAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (67 bp):
ATAATCCACTCAAAATAACAATGAAAAAATGAGGGACGATCGGAATATATCTCGTAATATCCTTG
AT
Found at i:2567904 original size:20 final size:20
Alignment explanation
Indices: 2567879--2567955 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
2567869 TTTGTCTGCT
2567879 TGTATCGATACATTTAATAA
1 TGTATCGATACATTTAATAA
*
2567899 TGTATCGATATAATTTGAA-ACA
1 TGTATCGATA-CATTT-AATA-A
* * *
2567921 TGTATCAATACATTTATTAC
1 TGTATCGATACATTTAATAA
*
2567941 TGTATTGATACATTT
1 TGTATCGATACATTT
2567956 CCTTAGCAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 24 0.52
21 10 0.22
22 12 0.26
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTAATAA
Found at i:2568732 original size:79 final size:79
Alignment explanation
Indices: 2568601--2568759 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
2568591 TTATAATTCC
2568601 TTAACTCGTGCATTTTCTCCAAATTCATATTTTTAGAATCCCAATGTTTGTTTGTCTAAATCAAA
1 TTAACTCGTGCATTTTCTCCAAATTCATATTTTTAGAATCCCAATGTTTGTTTGTCTAAATCAAA
2568666 TAAACTATCACATG
66 TAAACTATCACATG
2568680 TTAACTCGTGCATTTTCTCCAAATTCATATTTTTAGAATCCCAATGTTTGTTTGTCTAAATCAAA
1 TTAACTCGTGCATTTTCTCCAAATTCATATTTTTAGAATCCCAATGTTTGTTTGTCTAAATCAAA
2568745 TAAACTATCACATG
66 TAAACTATCACATG
2568759 T
1 T
2568760 AATTTTCTTC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (79 bp):
TTAACTCGTGCATTTTCTCCAAATTCATATTTTTAGAATCCCAATGTTTGTTTGTCTAAATCAAA
TAAACTATCACATG
Found at i:2572179 original size:11 final size:12
Alignment explanation
Indices: 2572152--2572180 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2572142 TAAATTTGAA
2572152 TAAAATCATATT
1 TAAAATCATATT
2572164 TAAAATCATA-T
1 TAAAATCATATT
2572175 TAAAAT
1 TAAAAT
2572181 GAAAAACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATCATATT
Done.