Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 11 of 187
Found at i:2714452 original size:229 final size:228
Alignment explanation
Indices: 2713949--2714490 Score: 607
Period size: 229 Copynumber: 2.4 Consensus size: 228
2713939 GCATTAGGGA
* * *
2713949 AAAACGCCGCTAGAGCATATAATTAGCGGCGATTTTCTAG-AATCGCCGCAAGATATGCACACCA
1 AAAACGCCGCTAAAGCATATTATTAGCGGCGATTTT-T-GTAAGCGCCGCAAGATATGCACACCA
* * *
2714013 AAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACGCCGCTAAAG
64 AAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAG
* * * * ***
2714078 CGTACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAAATTTCTTAACCAAAACTTAGCGTTTTGG
129 CATACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAAATATATTAACCAAAACCTAGCGTTTAAA
*
2714143 TCTTGATGTATACTATAATTAGTGGCGCTTACGAG
194 TCTTGATGTATACTAGAATTAGTGGCGCTTACGAG
** *
2714178 AAAACGCCGCTAAATAATAGTATTAGCGGCGATTTGATT-TAAGCGCCGCAAGATATGCACACCA
1 AAAACGCCGCTAAAGCATATTATTAGCGGCGATTT--TTGTAAGCGCCGCAAGATATGCACACCA
* *
2714242 AAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGGGCTGATTGGAAAACGCCGCTAAAG
64 AAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAG
* * * * ** *
2714307 TATACTATTAGCGGCGCGTT-TTTAGATGCGCCGC-AGAATATATTAACTGAAACGCT-GTGTTT
129 CATACTATTAGCGGCGC-TTCTCTAAAAGCGCCGCTA-AATATATTAACCAAAAC-CTAGCGTTT
* * *
2714369 AAATCTTGATGTATATTGGAATTAGTGGCG-TTCACGAT
191 AAATCTTGATGTATACTAGAATTAGTGGCGCTT-ACGAG
* * *
2714407 AAATCGCCGCTAAAGCATATTATTAGCGGC-ACTTTTTGGTAAGCGCCACAAAATAT-CTTA-AC
1 AAAACGCCGCTAAAGCATATTATTAGCGGCGA-TTTTT-GTAAGCGCCGCAAGATATGC--ACAC
*
2714469 CAAAACGCACAGTTTTGGTCTT
62 CAAAACGCAGAG-TTTGGTCTT
2714491 AACCATGCAT
Statistics
Matches: 264, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
227 2 0.01
228 5 0.02
229 242 0.92
230 14 0.05
231 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (228 bp):
AAAACGCCGCTAAAGCATATTATTAGCGGCGATTTTTGTAAGCGCCGCAAGATATGCACACCAAA
ACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCA
TACTATTAGCGGCGCTTCTCTAAAAGCGCCGCTAAATATATTAACCAAAACCTAGCGTTTAAATC
TTGATGTATACTAGAATTAGTGGCGCTTACGAG
Found at i:2714830 original size:8 final size:7
Alignment explanation
Indices: 2714803--2714836 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
2714793 AGGTTATGGT
*
2714803 GTTTTGG
1 GTTTAGG
2714810 GTTTAGG
1 GTTTAGG
2714817 GTTTAGG
1 GTTTAGG
2714824 AGTTTAGG
1 -GTTTAGG
2714832 GTTTA
1 GTTTA
2714837 TGCTACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:2715255 original size:23 final size:24
Alignment explanation
Indices: 2715206--2715269 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
2715196 TATAATACAT
* *
2715206 TAATTTAATAA-TATAAATAATTTA
1 TAATTT-ATAATTTTAAATAATTGA
2715230 TAATTTATAATTTTAAAT-ATTGA
1 TAATTTATAATTTTAAATAATTGA
2715253 TAATATT-TAAATTTTAA
1 TAAT-TTAT-AATTTTAA
2715270 TGTATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTTATAATTTTAAATAATTGA
Found at i:2715948 original size:44 final size:44
Alignment explanation
Indices: 2715894--2715983 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
2715884 AATTCTTGCG
* *
2715894 TCCTTCTTGCCCAATTTCTTGAATTCCCAAATCCATAAATGGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCC
* * *
2715938 TCCTTTTTGCCGAATTTCTTGAAATCCCAAATCCTTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCC
2715982 TC
1 TC
2715984 TTTCCTCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.09, T:0.36
Consensus pattern (44 bp):
TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCC
Found at i:2717636 original size:19 final size:19
Alignment explanation
Indices: 2717612--2717673 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
2717602 TTTAAAGTTA
2717612 TATTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
** *
2717631 TATTTT-AATCA--CGAATT
1 TATTTTAAAT-ATTTTATTT
2717648 T-TTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
2717666 TATTTTAA
1 TATTTTAA
2717674 TCACGAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 7 0.22
19 13 0.41
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTAAATATTTTATTT
Found at i:2717658 original size:35 final size:35
Alignment explanation
Indices: 2717614--2717701 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
2717604 TAAAGTTATA
*
2717614 TTTTAAATATTTTATTTTATTTTAATCACGAATTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
2717649 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAATAT
*
2717684 TTTTAAATATTTAATTTT
1 TTTTAAATATTTTATTTT
2717702 TTTAAAGTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAATAT
Found at i:2717758 original size:16 final size:16
Alignment explanation
Indices: 2717737--2717794 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
2717727 CGTAATTTAT
2717737 ATAACTTACATAATTC
1 ATAACTTACATAATTC
2717753 ATAACTTACATAATT-
1 ATAACTTACATAATTC
* * *
2717768 -TAAATT-TATAATAC
1 ATAACTTACATAATTC
2717782 ATAACTTACATAA
1 ATAACTTACATAA
2717795 CTTATTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 5 0.15
16 19 0.56
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAACTTACATAATTC
Found at i:2717764 original size:9 final size:9
Alignment explanation
Indices: 2717721--2717798 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
2717711 CAAATTTCAC
*
2717721 AACTTACGT
1 AACTTACAT
* *
2717730 AATTTATAT
1 AACTTACAT
2717739 AACTTACAT
1 AACTTACAT
2717748 AA-TT-CAT
1 AACTTACAT
2717755 AACTTACAT
1 AACTTACAT
* *
2717764 AATTTAAATTT
1 AACTTACA--T
*
2717775 ATA-ATACAT
1 A-ACTTACAT
2717784 AACTTACAT
1 AACTTACAT
2717793 AACTTA
1 AACTTA
2717799 TTAATATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 37 0.70
11 5 0.09
12 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (9 bp):
AACTTACAT
Found at i:2718076 original size:12 final size:12
Alignment explanation
Indices: 2718055--2718118 Score: 110
Period size: 12 Copynumber: 5.3 Consensus size: 12
2718045 AAAAACTTAC
2718055 ATAACTTACATA
1 ATAACTTACATA
*
2718067 ATATCTTACATA
1 ATAACTTACATA
2718079 ATAACTTACATA
1 ATAACTTACATA
*
2718091 ATATCTTACATA
1 ATAACTTACATA
2718103 ATAACTTACATA
1 ATAACTTACATA
2718115 ATAA
1 ATAA
2718119 TACATACCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:2718087 original size:24 final size:24
Alignment explanation
Indices: 2718055--2718117 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
2718045 AAAAACTTAC
2718055 ATAACTTACATAATATCTTACATA
1 ATAACTTACATAATATCTTACATA
2718079 ATAACTTACATAATATCTTACATA
1 ATAACTTACATAATATCTTACATA
2718103 ATAACTTACATAATA
1 ATAACTTACATAATA
2718118 ATACATACCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAACTTACATAATATCTTACATA
Found at i:2718173 original size:25 final size:23
Alignment explanation
Indices: 2718145--2718206 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 23
2718135 ATTAAATAAG
2718145 TTACATAATACACAAAAACAAAAAC
1 TTACATAATACA-AAAAAC-AAAAC
* *
2718170 TTACATAACTTACATAAAACATAAC
1 TTACATAA--TACAAAAAACAAAAC
2718195 TTACATAATACA
1 TTACATAATACA
2718207 TTAGTTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
25 20 0.61
26 5 0.15
27 4 0.12
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.24
Consensus pattern (23 bp):
TTACATAATACAAAAAACAAAAC
Found at i:2718193 original size:16 final size:16
Alignment explanation
Indices: 2718172--2718207 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2718162 ACAAAAACTT
2718172 ACATAACTTACATAAA
1 ACATAACTTACATAAA
*
2718188 ACATAACTTACATAAT
1 ACATAACTTACATAAA
2718204 ACAT
1 ACAT
2718208 TAGTTATTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
ACATAACTTACATAAA
Found at i:2723691 original size:21 final size:21
Alignment explanation
Indices: 2723665--2723722 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
2723655 TAACAACTTA
* *
2723665 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
*
2723686 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
2723707 AAGCAGATGCCGCAGC
1 AAGCAGAGGCCGCAGC
2723723 AAAGGAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.43, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:2724409 original size:126 final size:127
Alignment explanation
Indices: 2724182--2724414 Score: 312
Period size: 126 Copynumber: 1.8 Consensus size: 127
2724172 GTTTGTGAAA
* *
2724182 TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGATCATGT
1 TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGAACATGA
**
2724247 TCTTTAGCGGCGTTTTCTCCAAAGCGTTGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
66 TCTTTAGCGGCGTTTTCTCCAAAGCGCCGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
* *
2724309 TAAGCGCCGCTG-AAGAACA-TGA-TCTTTAGCGGCGTTTT-TTCCTAAGCGCCGCTGAAGAACA
1 TAAGCGCCGC-GAAAGAACACT-ACT-TTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGAACA
* *** *
2724370 TGATCTTTAGCGGCGTTTTTTCGGTAGCGCCGCTGAAGAACATGA
63 TGATCTTTAGCGGCGTTTTCTCCAAAGCGCCGCTAAAGAACATGA
2724415 GCTTTAGCAG
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
126 59 0.64
127 32 0.35
128 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (127 bp):
TAAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGAACATGA
TCTTTAGCGGCGTTTTCTCCAAAGCGCCGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
Found at i:2724431 original size:42 final size:42
Alignment explanation
Indices: 2724182--2724446 Score: 268
Period size: 42 Copynumber: 6.2 Consensus size: 42
2724172 GTTTGTGAAA
*
2724182 TAAGCGCCGC-GAAAGAACACT-A-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTG-AAGAACA-TGATC-TTTAGCGGCGTTTT-TTCG
* * * * * *
2724225 TAAGCGCAGCTAAAGATCATGTTCTTTAGCGGCGTTTTCTCC
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
* ** * * * * *
2724267 AAAGCGTTGCTAAAGAACATGATCTTCAGCGACGTTTTTCCC
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
*
2724309 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
2724351 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCGG
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTC-G
* * *
2724394 T-AGCGCCGCTGAAGAACATGAGCTTTAGCAGCATTTTTTTCTG
1 TAAGCGCCGCTGAAGAACATGATCTTTAGCGGC-GTTTTTTC-G
2724437 TAAGCGCCGC
1 TAAGCGCCGC
2724447 AAAAGTTAAC
Statistics
Matches: 190, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 142 0.75
43 39 0.21
44 9 0.05
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTCG
Found at i:2725989 original size:31 final size:29
Alignment explanation
Indices: 2725954--2726025 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 29
2725944 TTTTTGTACC
*
2725954 AAAATGAAAGCAATCC-AAAAGTTGGGTGACT
1 AAAATGAAAGC--TCCTAAAAGTTGAGTGA-T
2725985 AAAATGAAAGCTCCTTAAAAGTTGAGTGAT
1 AAAATGAAAGCTCC-TAAAAGTTGAGTGAT
2726015 AAAATTGAAAG
1 AAAA-TGAAAG
2726026 GATTTTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 3 0.08
30 5 0.14
31 29 0.78
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (29 bp):
AAAATGAAAGCTCCTAAAAGTTGAGTGAT
Found at i:2727035 original size:3 final size:3
Alignment explanation
Indices: 2727027--2727066 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2727017 GACTACAATC
2727027 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
2727067 GACGGGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:2730593 original size:25 final size:26
Alignment explanation
Indices: 2730542--2730593 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
2730532 GTTATAACTT
2730542 TTTTTTTATTTACCAAAAAATATATAA
1 TTTTTTTATTTACC-AAAAATATATAA
2730569 TTTTTTTATTTACC-AAAATATATAA
1 TTTTTTTATTTACCAAAAATATATAA
2730594 AAAAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 11 0.44
27 14 0.56
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTTTTATTTACCAAAAATATATAA
Found at i:2731145 original size:14 final size:14
Alignment explanation
Indices: 2731114--2731154 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
2731104 CAATAACCAC
*
2731114 AATAATTGAAACTAG
1 AATAATT-AAATTAG
2731129 AATAATTAAATTAG
1 AATAATTAAATTAG
2731143 AATAATTAAATT
1 AATAATTAAATT
2731155 GATACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (14 bp):
AATAATTAAATTAG
Found at i:2732001 original size:14 final size:14
Alignment explanation
Indices: 2731984--2732012 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2731974 TTTTTGTATC
2731984 AATTTAATTATTCT
1 AATTTAATTATTCT
2731998 AATTTAATTATTCT
1 AATTTAATTATTCT
2732012 A
1 A
2732013 GTTCCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:2733997 original size:24 final size:24
Alignment explanation
Indices: 2733970--2734015 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2733960 AGAACAATCC
* *
2733970 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
2733994 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
2734016 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:2738189 original size:132 final size:131
Alignment explanation
Indices: 2737948--2738630 Score: 1096
Period size: 132 Copynumber: 5.2 Consensus size: 131
2737938 GACAACGAAT
*
2737948 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
2738013 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCATATCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
2738078 AG
130 AG
* *
2738080 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTAGTAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * *
2738145 TACTTCCCTCGGCAATAGTGGAATAGATTAAAGATTTCAGATCTTATTTCCCTAAGCTGTAGTGG
66 TACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
2738210 AG
130 AG
** *
2738212 CAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *
2738277 TACTTTCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAATAGTGG
66 TACTTCCCTG-GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*
2738342 AT
130 AG
* *
2738344 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
2738409 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*
2738474 AA
130 AG
** *
2738476 CAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTC
1 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
2738541 TACTTCCCTGGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCTGTAGTGG
66 TACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*
2738606 AT
130 AG
2738608 CAGATCGAAGATGGCAGATTTTA
1 CAGATCGAAGATGGCAGATTTTA
2738631 NNNNNNNNNN
Statistics
Matches: 509, Mismatches: 38, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 504 0.99
133 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (131 bp):
CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
G
Found at i:2743970 original size:43 final size:43
Alignment explanation
Indices: 2743909--2743990 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
2743899 TAAAAACACT
* **
2743909 GCTATAGAACATGACCTTTAGCTGTGCTTTTCCCACAAACGTC
1 GCTATAGAACATGACCTTTAGCGGCACTTTTCCCACAAACGTC
2743952 GCTATAGAACATGACCTTTAGCGGCACTTTTCCCACAAA
1 GCTATAGAACATGACCTTTAGCGGCACTTTTCCCACAAA
2743991 TGCGTTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (43 bp):
GCTATAGAACATGACCTTTAGCGGCACTTTTCCCACAAACGTC
Found at i:2750155 original size:43 final size:43
Alignment explanation
Indices: 2750094--2750341 Score: 496
Period size: 43 Copynumber: 5.8 Consensus size: 43
2750084 TTTTATATTC
2750094 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
2750137 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
2750180 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
2750223 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
2750266 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
1 TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
2750309 TTTAAATGTTTATGTAAGTTATGATAATCATTA
1 TTTAAATGTTTATGTAAGTTATGATAATCATTA
2750342 TGAAATATGA
Statistics
Matches: 205, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (43 bp):
TTTAAATGTTTATGTAAGTTATGATAATCATTAACTTTAAATG
Found at i:2750409 original size:59 final size:59
Alignment explanation
Indices: 2750338--2751225 Score: 1321
Period size: 59 Copynumber: 15.1 Consensus size: 59
2750328 TATGATAATC
2750338 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
2750397 ATTATGAGATATGGTTATTTAATTAATTAATCAAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
2750456 ATTATGAGATATGGTTATTTAATTAATTAATCAAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
2750515 ATTATGAGATATGGTTATTTAATTAATTAATCAAAAATAAATTAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
2750574 ATTATAAAATATGATTATTTATTTAATTAATAAAAAAT-AATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
2750632 ATTATGAATTATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
2750691 ATTATGAAATATGATTATTTATTTAACTAATCTAAAATAAATCAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* ** *
2750750 ATTATAAAATATGATTATTTATTTAATTAATTGAAAATAAATTAATTATTCATATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * *
2750809 ATTATGAAATATGATTACTTATTTAATTAATCTAAAATAAATTAATTATTCTTAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
2750868 ATTAT-AAAAATGATTATTTATTTAATTAATCAAAAATTAATTAATTATTCATATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* *
2750926 ATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * * *
2750985 ATTATGAAATATGATTATTTATTTAATTGATCTAAAATGAATTAATTATTCATAAAACT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * * * *
2751044 ATTATAAAATATGATTATTTATTTAATTAATAAAAAATTAATTAATTATTCGTATAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* *
2751103 ATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
* * *
2751162 ATTATGAAATATGATTATTTATTTAATTAATCTAAAATAAATCAATTATTCATAAAATT
1 ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
2751221 ATTAT
1 ATTAT
2751226 AAANNNNNNN
Statistics
Matches: 758, Mismatches: 69, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
58 103 0.14
59 655 0.86
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (59 bp):
ATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
Found at i:2750559 original size:19 final size:20
Alignment explanation
Indices: 2750535--2750572 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2750525 ATGGTTATTT
2750535 AATTAATTAATCA-AAAATA
1 AATTAATTAATCATAAAATA
*
2750554 AATTAATTATTCATAAAAT
1 AATTAATTAATCATAAAAT
2750573 TATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTAATTAATCATAAAATA
Found at i:2750867 original size:294 final size:294
Alignment explanation
Indices: 2750332--2751225 Score: 1412
Period size: 294 Copynumber: 3.0 Consensus size: 294
2750322 GTAAGTTATG
* * *
2750332 ATAATCATTATGAAATATGATTATTTATTTAATTAATCAAAAATAAATTAATTATTCATAGAATT
1 ATAATTATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
* * * * * *
2750397 ATTATGAGATATGGTTATTTAATTAATTAATCAAAAATAAATTAATTATTCATAGAATTATTATG
66 ATTATGAAATATGATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATA
* * * * * *
2750462 AGATATGGTTATTTAATTAATTAATCAAAAATAAATTAATTATTCATAGAATTATTATGAGATAT
131 AAATATGATTATTTATTTAATTAATAAAAAATAAATTAATTATTCATATAATTATTATGAAATAT
* * *
2750527 GGTTATTTAATTAATTAATCAAAAATAAATTAATTATTCATAAAATTATTATAAAATATGATTAT
196 GATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATAAAATATGATTAT
*
2750592 TTATTTAATTAATAAAAAATAATTAATTATTCGT
261 TTATTTAATTAATAAAAAATAATTAATTATTCAT
*
2750626 ATAATTATTATGAATTATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATAATTATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
* *
2750691 ATTATGAAATATGATTATTTATTTAACTAATCTAAAATAAATCAATTATTCATAAAATTATTATA
66 ATTATGAAATATGATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATA
**
2750756 AAATATGATTATTTATTTAATTAATTGAAAATAAATTAATTATTCATATAATTATTATGAAATAT
131 AAATATGATTATTTATTTAATTAATAAAAAATAAATTAATTATTCATATAATTATTATGAAATAT
* *
2750821 GATTACTTATTTAATTAATCTAAAATAAATTAATTATTCTTAAAATTATTATAAAA-ATGATTAT
196 GATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATAAAATATGATTAT
*
2750885 TTATTTAATTAATCAAAAATTAATTAATTATTCAT
261 TTATTTAATTAAT-AAAAAATAATTAATTATTCAT
2750920 ATAATTATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
1 ATAATTATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
* * *
2750985 ATTATGAAATATGATTATTTATTTAATTGATCTAAAATGAATTAATTATTCATAAAACTATTATA
66 ATTATGAAATATGATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATA
* *
2751050 AAATATGATTATTTATTTAATTAATAAAAAATTAATTAATTATTCGTATAATTATTATGAAATAT
131 AAATATGATTATTTATTTAATTAATAAAAAATAAATTAATTATTCATATAATTATTATGAAATAT
* * *
2751115 GAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATTATTATGAAATATGATTAT
196 GATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATAAAATATGATTAT
** *
2751180 TTATTTAATTAATCTAAAATAAATCAATTATTCAT
261 TTATTTAATTAATAAAAAAT-AATTAATTATTCAT
*
2751215 AAAATTATTAT
1 ATAATTATTAT
2751226 AAANNNNNNN
Statistics
Matches: 551, Mismatches: 46, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
293 21 0.04
294 486 0.88
295 44 0.08
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (294 bp):
ATAATTATTATGAAATATGAATATTTATTTAATTAATCTAAAATAAATTAATTATTCATAGAATT
ATTATGAAATATGATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATA
AAATATGATTATTTATTTAATTAATAAAAAATAAATTAATTATTCATATAATTATTATGAAATAT
GATTATTTATTTAATTAATCTAAAATAAATTAATTATTCATAAAATTATTATAAAATATGATTAT
TTATTTAATTAATAAAAAATAATTAATTATTCAT
Found at i:2753985 original size:51 final size:51
Alignment explanation
Indices: 2753909--2754031 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
2753899 AATTTTAAAT
* * * * ** *
2753909 GCCAGGGAGATGAGATTCGTTGCCTTCAACTTTAATTTGTTCCGTT-ACAAC
1 GCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCCGTTCCATTGA-AAC
*
2753960 GCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCCGTTCCATTGAAAC
1 GCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCCGTTCCATTGAAAC
* *
2754011 GTCAGGGAAATAAAATTTGCT
1 GCCAGGGAAATAAGATTTGCT
2754032 ATCTTCGACC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (51 bp):
GCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCCGTTCCATTGAAAC
Found at i:2754575 original size:132 final size:132
Alignment explanation
Indices: 2754077--2754879 Score: 1017
Period size: 132 Copynumber: 6.1 Consensus size: 132
2754067 TGATCTGCAA
* * *
2754077 TCTTCAACCTACTCCACAACTGCTTAGGGAGATAGGATTAGTGACTTAAATCTGCTTCCCTACTA
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTA
* * ** * *
2754142 CCTTGGGAAGATAAGATTCGCCATTTTTTTTAT-TACTCCACTACTGCTTAGGGAGA-CAAGATC
66 CCTTGGGAAGATAAGATTCACCA--TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAA-ATC
2754205 TACAT
128 TACAT
* * * *
2754210 TCTTCAACCTACTCCACTGCTGCTCAGGGAGAT-GAGATTAGTAGCCTAAATCTGTTTCCCTACT
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAG-GATTAGTGGCTTAAATCTGCTTCCCTACT
* * *
2754274 ACCTTGAGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTACTTAGGGAG-----A-CTA
65 ACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAAATCTA
*
2754333 GA-
130 CAT
* * *
2754335 TC-T--ACCTACTCCACTACTGCTAAGGGAGAT-GAGATTAGTAGCCTAAATCTGCTTCCCTACT
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAG-GATTAGTGGCTTAAATCTGCTTCCCTACT
* **
2754396 ACCTTGGGAAGATAGGATTCACTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAAATCTA
65 ACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAAATCTA
2754461 CAT
130 CAT
2754464 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTA
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTA
* * * *
2754529 CCTTGGGAAAATAAGATTCTCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGACCAGATCTAC
66 CCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAAATCTAC
2754594 AT
131 AT
* * *
2754596 TCTTCAACCTACTCCACTGCTGATCAGGGAGATAAGATTAGTGGCTTAAATCTGCTTCCCTACTA
1 TCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTA
* * * * *
2754661 CCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTGCTACTTAGGGA-AACAAGATCTA
66 CCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAA-ATCTA
2754725 CAT
130 CAT
* *
2754728 TCTTCAACCTACTCTCAGCTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTAC
1 TCTTCAACCTACTC-CA-CTACTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTAC
* * * * *
2754793 TACTTTGGGAAGATAAGACTCAACATCTTCGATCTGCTCCGCTACTGCTTAGAGAGA-CATGATC
64 TACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCA-AATC
*
2754857 TACAA
128 TACAT
*
2754862 TATTCAACCTACTCCACT
1 TCTTCAACCTACTCCACT
2754880 GCTAATCAAG
Statistics
Matches: 591, Mismatches: 61, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
122 106 0.18
124 1 0.00
125 2 0.00
126 4 0.01
127 2 0.00
128 4 0.01
129 2 0.00
130 1 0.00
131 8 0.01
132 266 0.45
133 81 0.14
134 113 0.19
135 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (132 bp):
TCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTAGTGGCTTAAATCTGCTTCCCTACTA
CCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACCAAATCTAC
AT
Found at i:2755495 original size:12 final size:12
Alignment explanation
Indices: 2755478--2755502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2755468 TGACAAGAAA
2755478 ATCTGAAGGGAT
1 ATCTGAAGGGAT
2755490 ATCTGAAGGGAT
1 ATCTGAAGGGAT
2755502 A
1 A
2755503 GTCTCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:2773320 original size:132 final size:133
Alignment explanation
Indices: 2773072--2773360 Score: 438
Period size: 132 Copynumber: 2.2 Consensus size: 133
2773062 ATTTAATCCA
* *
2773072 CTCCACTACAACTTCAGGGGGATAGGATTATCGGCTTTAACCTACTCCACTGCATCCTCATGGAG
1 CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACCTCATGGAG
* *
2773137 ATAAGGTTTGCCATATTTAGTCTGCACCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
66 ATAAGGTTTGCCATATTCAGTCTGCACCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGT
2773202 CTG
131 CTG
* * * * *
2773205 CTCCTCTACACCTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCA-GGA-
1 CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACCTCATGGAG
* * *
2773268 AGTAAGGTTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAAGAGGATAAGACTTGCTTACTTAG
66 A-TAAGGTTTGCCATATTCAGTCTGCACCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAG
2773333 TCTG
130 TCTG
*
2773337 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTACAACTTCAGGGAGATA
2773361 AGACTAGATG
Statistics
Matches: 140, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
131 1 0.01
132 86 0.61
133 53 0.38
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (133 bp):
CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACCTCATGGAG
ATAAGGTTTGCCATATTCAGTCTGCACCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGT
CTG
Found at i:2773335 original size:44 final size:43
Alignment explanation
Indices: 2773153--2773784 Score: 162
Period size: 44 Copynumber: 14.5 Consensus size: 43
2773143 TTTGCCATAT
* *
2773153 TTAGTCTGCACCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
1 TTAGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* * * * * *
2773197 TTAGTCTGCTCCTCTACACCTTC-AGGGAGATAGGATTATCGGCT--
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACT-T--GCTAC
** * * * ** *
2773241 TTAACCTGCTCCACTGTAACTTCAGGAAG-TAAGGTTTGCCATC
1 TTAGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGCTA-C
* *
2773284 TTCAGTCTGCCCCACTGTAACTTCAAGAGGATAAGACTTGCTTAC
1 TT-AGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* * * *
2773329 TTAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTAGATGC
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTAC
* * ***** *
2773372 --AATCTGCT-CTCTGCAACTTC-AGAAGGATAAGATCCAAAGAT
1 TTAGTCTGCTCCACTGCAACTTCAAG-AGGATAAGA-CTTGCTAC
* * * * *
2773413 TTAAT-TCGCTCCACTGCAACTT-TAGGGAGATAGGATTATCGGCT--
1 TTAGTCT-GCTCCACTGCAACTTCAAGAG-GATAAGACT-T--GCTAC
** * ** *
2773457 TTAACCTGCTCCACTGCAACTTC-AGGGAGATAAGGTTTGCCATC
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTA-C
* * *
2773501 TTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTAC
1 TT-AGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* * *
2773546 TTAGTCTGCTCCACTGCAACTTC-AGGGAGATAACACTAG--A-
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTAC
** * * ** * *
2773586 TGGGATCTGCT-CTCTGTAACTTCAA-AGAGATAAGATCCAAGGT-T
1 TTAG-TCTGCTCCACTGCAACTTCAAGAG-GATAAGA--CTTGCTAC
* * * * * *
2773630 TTAATCCGCTCCACTGCAACTTC-AGGGAGATAGGA-TTATCTGC
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTT-GCTAC
* * * *
2773673 TCTAATCTGCTCCACTGCAACTTC-AGGGAGATAAGATTTGCCATC
1 T-TAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTA-C
* * *
2773718 TTCAGTCTAC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* *
2773763 TTAGTCTACTCTACTGCAACTT
1 TTAGTCTGCTCCACTGCAACTT
2773785 TAGGGAGATA
Statistics
Matches: 434, Mismatches: 103, Indels: 102
0.68 0.16 0.16
Matches are distributed among these distances:
40 42 0.10
41 21 0.05
42 6 0.01
43 31 0.07
44 245 0.56
45 80 0.18
46 7 0.02
47 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
TTAGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGCTAC
Found at i:2773523 original size:45 final size:44
Alignment explanation
Indices: 2773462--2773878 Score: 226
Period size: 44 Copynumber: 9.6 Consensus size: 44
2773452 CGGCTTTAAC
**
2773462 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AGT
* * *
2773507 CTGCCCCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAGT
* * ***
2773551 CTGCTCCACTGCAACTTCAGGGAGATAACACTAG-AT-GGGA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGT
* * ** * * *
2773592 CTGCT-CTCTGTAACTTCAAAGAGATAAGA--TCCA-AGGTTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA---CTTAGT
* * * * *
2773635 CCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATC-TGCTCTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCATACT-TAGT
*
2773679 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AGT
* * *
2773724 CTAC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAGT
* * * * * *
2773768 CTACTCTACTGCAACTTTAGGGAGATAAGACTAG-ATGC--AAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGT
** * * *
2773809 CTGCT-CTTTGCAACTTCAGAGAGATAAGATCTGTG-GT-TTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTTAGT
*
2773852 CCGCTCCACTGCAACTTCAGGGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
2773879 GGATCATTGG
Statistics
Matches: 286, Mismatches: 58, Indels: 57
0.71 0.14 0.14
Matches are distributed among these distances:
39 1 0.00
40 38 0.13
41 14 0.05
42 4 0.01
43 16 0.06
44 138 0.48
45 73 0.26
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGT
Found at i:2773554 original size:217 final size:218
Alignment explanation
Indices: 2773216--2773892 Score: 1065
Period size: 217 Copynumber: 3.1 Consensus size: 218
2773206 TCCTCTACAC
* *
2773216 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCAGGAAG-TAAGGTTTGC
1 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
*
2773280 CATCTTCAGTCTGCCCCACTGTAACTTCAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
66 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
2773345 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAG-GATAAGATCCAA
131 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
* * *
2773409 AGATTTAATTCGCTCCACTGCAA
196 GGTTTTAATCCGCTCCACTGCAA
*
2773432 CTTTAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
1 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
2773497 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
66 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
* ** *
2773562 CAACTTCAGGGAGATAACACTAGATGGGATCTGCTCTCTGTAACTTCA-AAGAGATAAGATCCAA
131 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
2773626 GGTTTTAATCCGCTCCACTGCAA
196 GGTTTTAATCCGCTCCACTGCAA
* * * *
2773649 CTTCAGGGAGATAGGATTATCTGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
* * * * * *
2773714 CATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTACTCTACTG
66 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
* * ***
2773779 CAACTTTAGGGAGATAAGACTAGATGCAATCTGCTCTTTGCAACTTCAG-AGAGATAAGATCTGT
131 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
*
2773843 GGTTTTAGTCCGCTCCACTGCAA
196 GGTTTTAATCCGCTCCACTGCAA
* *
2773866 CTTCAGGGAGATAGGATCATTGGCTTT
1 CTTCAGGGAGATAGGATTATCGGCTTT
2773893 CGATCTGTTC
Statistics
Matches: 422, Mismatches: 36, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
216 54 0.13
217 368 0.87
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
GGTTTTAATCCGCTCCACTGCAA
Found at i:2785180 original size:130 final size:130
Alignment explanation
Indices: 2784947--2785205 Score: 464
Period size: 130 Copynumber: 2.0 Consensus size: 130
2784937 AGATTTTCTT
* *
2784947 ATAAAATAAAAACGATATTCTAATTTTGGGGATTTTGAGAAATTGTACCCTAACGTATTGGGTCT
1 ATAAAATAAAAACGATATTCAAAGTTTGGGGATTTTGAGAAATTGTACCCTAACGTATTGGGTCT
* *
2785012 CGATTTCTTCGTCTGACTTAAACAATTGATTATTCTTTTCAGATTTCATCATTTGAGTTTTTTAG
66 CGATTTATTCGTCTGACTTAAACAATTGATTATCCTTTTCAGATTTCATCATTTGAGTTTTTTAG
* *
2785077 ATAAAATAAAAGCGATATTCAAAGTTTGGGGATTTTGAGTAATTGTACCCTAACGTATTGGGTCT
1 ATAAAATAAAAACGATATTCAAAGTTTGGGGATTTTGAGAAATTGTACCCTAACGTATTGGGTCT
2785142 CGATTTATTCGTCTGACTTAAACAATTGATTATCCTTTTCAGATTTCATCATTTGAGTTTTTTA
66 CGATTTATTCGTCTGACTTAAACAATTGATTATCCTTTTCAGATTTCATCATTTGAGTTTTTTA
2785206 TAAATCTTTT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (130 bp):
ATAAAATAAAAACGATATTCAAAGTTTGGGGATTTTGAGAAATTGTACCCTAACGTATTGGGTCT
CGATTTATTCGTCTGACTTAAACAATTGATTATCCTTTTCAGATTTCATCATTTGAGTTTTTTAG
Found at i:2789863 original size:31 final size:31
Alignment explanation
Indices: 2789828--2789891 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
2789818 GCATGTTGCA
2789828 TTAGAATAATGATTAATGGACTAATAAAACT
1 TTAGAATAATGATTAATGGACTAATAAAACT
2789859 TTAGAATAATGATTAATGGACTAATAAAACT
1 TTAGAATAATGATTAATGGACTAATAAAACT
2789890 TT
1 TT
2789892 CACAAGGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (31 bp):
TTAGAATAATGATTAATGGACTAATAAAACT
Found at i:2790804 original size:88 final size:88
Alignment explanation
Indices: 2790638--2790806 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
2790628 GTGAAACTTT
* **
2790638 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGTCTTCCTGTGTTGA
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTGA
* *
2790703 CAGCGAAGTAGATCGAGGATACC
66 CAGCAAAGCAGATCGAGGATACC
* * * * * *
2790726 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTGA
2790791 CAGCAAAGCAGATCGA
66 CAGCAAAGCAGATCGA
2790807 AGACATCAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTGA
CAGCAAAGCAGATCGAGGATACC
Found at i:2791057 original size:50 final size:50
Alignment explanation
Indices: 2791002--2791592 Score: 349
Period size: 50 Copynumber: 11.8 Consensus size: 50
2790992 TTTGGCATTA
* * *
2791002 CAGTGGAACGGATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* * * * * * **
2791052 TAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* ** * * * * * *
2791102 CAATTTAA-AGATTAAAGCCACAACGACGAATCTTACTT-CCTTAGCGATG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGA-CGGTG
* * * * * **
2791151 CAGTGGAATAGATTGAAGCTACAACGGTGGATCTGGTTTCCCTGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* ** * * * * * *
2791201 CAATTAAAAAGATTGAAGCCACAATGACGGATCTTACTTCCCTGGCGGTA
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* * * * * ** ** *
2791251 CAGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCAACATTA
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* ** * * * *
2791301 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
** * * * * * **
2791351 CAGTGGAACAGATTGAAGTTACGATGGTGGATCTGGTTTCCCTGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* ** * * * *
2791401 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGATGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* * * * * * **
2791451 CAGTGGAACAGATTGAAGCTACGATGGAGGATCTGGTTTCCCTGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* ** * * * * *
2791501 CAATTAAAAAGATTGAAGCCACAATGGTGGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
* * * * *
2791551 TAGTGGAATAGATTGAAGTCACAACGGCGAATCTTGTTTCCC
1 CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCC
2791593 CAACATTGCA
Statistics
Matches: 379, Mismatches: 159, Indels: 6
0.70 0.29 0.01
Matches are distributed among these distances:
48 3 0.01
49 30 0.08
50 342 0.90
51 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCCACAACGGCGGATCTTGCTTCCCTGACGGTG
Found at i:2791271 original size:100 final size:100
Alignment explanation
Indices: 2791012--2791618 Score: 815
Period size: 100 Copynumber: 6.1 Consensus size: 100
2791002 CAGTGGAACG
* * *
2791012 GATTGAAGCCACAACGGCGAATCTTGCTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGAC
1 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGAC
*
2791077 GGCGGATCTGGTTTCCCCGACATTGCAATT-TAAA
66 GGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
* * * * * * * *
2791111 GATTAAAGCCACAACGACGAATCTTACTTCCTTAGCGATGCAGTGGAATAGATTGAAGCTACAAC
1 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGAC
* *
2791176 GGTGGATCTGGTTTCCCTGACATTGCAATTAAAAA
66 GGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
* * * *
2791211 GATTGAAGCCACAATGACGGATCTTACTTCCCTGGCGGTACAGTAGAACAGATTGAAGCTACGAC
1 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGAC
* *
2791276 GGCGGATCTGGTTTCCCCAACATTACAATTAAAAA
66 GGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
* * *
2791311 GATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTTACGAT
1 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGAC
* *
2791376 GGTGGATCTGGTTTCCCTGACATTGCAATTAAAAA
66 GGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
* ** *
2791411 GATTGAAGCCACAACGGCAGATCTTACTTCCCTGATGGTGCAGTGGAACAGATTGAAGCTACGAT
1 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGAC
* *
2791476 GGAGGATCTGGTTTCCCTGACATTGCAATTAAAAA
66 GGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
* * * * *
2791511 GATTGAAGCCACAATGGTGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAG-TCACAA
1 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT-ACGA
* * * *
2791575 CGGCGAATCTTGTTTCCCCAACATTGCAGTTAAACAA
65 CGGCGGATCTGGTTTCCCCGACATTGCAATTAAA-AA
2791612 -ATTGAAG
1 GATTGAAG
2791619 AAAATAATCC
Statistics
Matches: 449, Mismatches: 56, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
99 85 0.19
100 362 0.81
101 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGAC
GGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
Found at i:2793076 original size:3 final size:3
Alignment explanation
Indices: 2793041--2793130 Score: 67
Period size: 3 Copynumber: 28.3 Consensus size: 3
2793031 CTTTTTTAGT
* * * *
2793041 TTA TT- TTA TTA ATA TTG TTA TTGCA TCA TTA TTA TTGCA TTA TTTG
1 TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA TT--A TTA -TTA
2793087 TTA TTA TTA TTA TTA TTA TTAA TTA -TA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA T
2793131 ACTTACCTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
2 4 0.06
3 53 0.76
4 8 0.11
5 5 0.07
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2793302 original size:27 final size:28
Alignment explanation
Indices: 2793272--2793347 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 28
2793262 ATATAGATTT
* *
2793272 ATATTTTATAATATTTATACATTT-TCC
1 ATATTTTATAATATATATACATTTATAC
**
2793299 ATATTTTATAATCTATATATATGTTTATAC
1 ATATTTTATAA--TATATATACATTTATAC
*
2793329 ATATTTTATAATATGTATA
1 ATATTTTATAATATATATA
2793348 TATATATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.27
28 7 0.17
29 10 0.24
30 13 0.32
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (28 bp):
ATATTTTATAATATATATACATTTATAC
Found at i:2793349 original size:22 final size:23
Alignment explanation
Indices: 2793312--2793355 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2793302 TTTTATAATC
*
2793312 TATATATATGTTTATACATATTT
1 TATATATATGTATATACATATTT
*
2793335 TATA-ATATGTATATATATATT
1 TATATATATGTATATACATATT
2793356 CATACACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATATATGTATATACATATTT
Found at i:2793361 original size:32 final size:30
Alignment explanation
Indices: 2793298--2793366 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
2793288 ATACATTTTC
* *
2793298 CATATTTTATAATCTATATATATGTTTATA
1 CATATTTTATAATCTATATATATATTCATA
*
2793328 CATATTTTATAATATGTATATATATATTCATA
1 CATATTTTAT-A-ATCTATATATATATTCATA
2793360 CACTATT
1 CA-TATT
2793367 CAAAACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.30
31 1 0.03
32 18 0.55
33 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (30 bp):
CATATTTTATAATCTATATATATATTCATA
Found at i:2795606 original size:132 final size:133
Alignment explanation
Indices: 2795358--2795646 Score: 438
Period size: 132 Copynumber: 2.2 Consensus size: 133
2795348 ATTTAATCCA
* *
2795358 CTCCACTACAACTTCAGGGGGATAGGATTATCGGCTTTAACCTACTCCACTGCATCCTCATGGAG
1 CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACCTCATGGAG
* *
2795423 ATAAGGTTTGCCATATTTAGTCTGCACCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGT
66 ATAAGGTTTGCCATATTCAGTCTGCACCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGT
2795488 CTG
131 CTG
* * * * *
2795491 CTCCTCTACACCTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCA-GGA-
1 CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACCTCATGGAG
* * *
2795554 AGTAAGGTTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAAGAGGATAAGACTTGCTTACTTAG
66 A-TAAGGTTTGCCATATTCAGTCTGCACCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAG
2795619 TCTG
130 TCTG
*
2795623 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTACAACTTCAGGGAGATA
2795647 AGACTAGATG
Statistics
Matches: 140, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
131 1 0.01
132 86 0.61
133 53 0.38
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (133 bp):
CTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAACCTACTCCACTGCAACCTCATGGAG
ATAAGGTTTGCCATATTCAGTCTGCACCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGT
CTG
Found at i:2795621 original size:44 final size:43
Alignment explanation
Indices: 2795439--2796070 Score: 162
Period size: 44 Copynumber: 14.5 Consensus size: 43
2795429 TTTGCCATAT
* *
2795439 TTAGTCTGCACCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
1 TTAGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* * * * * *
2795483 TTAGTCTGCTCCTCTACACCTTC-AGGGAGATAGGATTATCGGCT--
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACT-T--GCTAC
** * * * ** *
2795527 TTAACCTGCTCCACTGTAACTTCAGGAAG-TAAGGTTTGCCATC
1 TTAGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGCTA-C
* *
2795570 TTCAGTCTGCCCCACTGTAACTTCAAGAGGATAAGACTTGCTTAC
1 TT-AGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* * * *
2795615 TTAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTAGATGC
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTAC
* * ***** *
2795658 --AATCTGCT-CTCTGCAACTTC-AGAAGGATAAGATCCAAAGAT
1 TTAGTCTGCTCCACTGCAACTTCAAG-AGGATAAGA-CTTGCTAC
* * * * *
2795699 TTAAT-TCGCTCCACTGCAACTT-TAGGGAGATAGGATTATCGGCT--
1 TTAGTCT-GCTCCACTGCAACTTCAAGAG-GATAAGACT-T--GCTAC
** * ** *
2795743 TTAACCTGCTCCACTGCAACTTC-AGGGAGATAAGGTTTGCCATC
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTA-C
* * *
2795787 TTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTAC
1 TT-AGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* * *
2795832 TTAGTCTGCTCCACTGCAACTTC-AGGGAGATAACACTAG--A-
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTAC
** * * ** * *
2795872 TGGGATCTGCT-CTCTGTAACTTCAA-AGAGATAAGATCCAAGGT-T
1 TTAG-TCTGCTCCACTGCAACTTCAAGAG-GATAAGA--CTTGCTAC
* * * * * *
2795916 TTAATCCGCTCCACTGCAACTTC-AGGGAGATAGGA-TTATCTGC
1 TTAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTT-GCTAC
* * * *
2795959 TCTAATCTGCTCCACTGCAACTTC-AGGGAGATAAGATTTGCCATC
1 T-TAGTCTGCTCCACTGCAACTTCAAGAG-GATAAGACTTGCTA-C
* * *
2796004 TTCAGTCTAC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTGC
1 TT-AGTCTGCTC-CACTGCAACTTCAAGAGGATAAGACTTGC-TAC
* *
2796049 TTAGTCTACTCTACTGCAACTT
1 TTAGTCTGCTCCACTGCAACTT
2796071 TAGGGAGATA
Statistics
Matches: 434, Mismatches: 103, Indels: 102
0.68 0.16 0.16
Matches are distributed among these distances:
40 42 0.10
41 21 0.05
42 6 0.01
43 31 0.07
44 245 0.56
45 80 0.18
46 7 0.02
47 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
TTAGTCTGCTCCACTGCAACTTCAAGAGGATAAGACTTGCTAC
Found at i:2795809 original size:45 final size:44
Alignment explanation
Indices: 2795748--2796164 Score: 226
Period size: 44 Copynumber: 9.6 Consensus size: 44
2795738 CGGCTTTAAC
**
2795748 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AGT
* * *
2795793 CTGCCCCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAGT
* * ***
2795837 CTGCTCCACTGCAACTTCAGGGAGATAACACTAG-AT-GGGA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGT
* * ** * * *
2795878 CTGCT-CTCTGTAACTTCAAAGAGATAAGA--TCCA-AGGTTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA---CTTAGT
* * * * *
2795921 CCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATC-TGCTCTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCATACT-TAGT
*
2795965 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AGT
* * *
2796010 CTAC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAGT
* * * * * *
2796054 CTACTCTACTGCAACTTTAGGGAGATAAGACTAG-ATGC--AAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGT
** * * *
2796095 CTGCT-CTTTGCAACTTCAGAGAGATAAGATCTGTG-GT-TTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTTAGT
*
2796138 CCGCTCCACTGCAACTTCAGGGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
2796165 GGATCATTGG
Statistics
Matches: 286, Mismatches: 58, Indels: 57
0.71 0.14 0.14
Matches are distributed among these distances:
39 1 0.00
40 38 0.13
41 14 0.05
42 4 0.01
43 16 0.06
44 138 0.48
45 73 0.26
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGT
Found at i:2795840 original size:217 final size:218
Alignment explanation
Indices: 2795502--2796178 Score: 1065
Period size: 217 Copynumber: 3.1 Consensus size: 218
2795492 TCCTCTACAC
* *
2795502 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGTAACTTCAGGAAG-TAAGGTTTGC
1 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
*
2795566 CATCTTCAGTCTGCCCCACTGTAACTTCAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
66 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
2795631 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAG-GATAAGATCCAA
131 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
* * *
2795695 AGATTTAATTCGCTCCACTGCAA
196 GGTTTTAATCCGCTCCACTGCAA
*
2795718 CTTTAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
1 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
2795783 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
66 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
* ** *
2795848 CAACTTCAGGGAGATAACACTAGATGGGATCTGCTCTCTGTAACTTCA-AAGAGATAAGATCCAA
131 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
2795912 GGTTTTAATCCGCTCCACTGCAA
196 GGTTTTAATCCGCTCCACTGCAA
* * * *
2795935 CTTCAGGGAGATAGGATTATCTGCTCTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
* * * * * *
2796000 CATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTTAGTCTACTCTACTG
66 CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
* * ***
2796065 CAACTTTAGGGAGATAAGACTAGATGCAATCTGCTCTTTGCAACTTCAG-AGAGATAAGATCTGT
131 CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
*
2796129 GGTTTTAGTCCGCTCCACTGCAA
196 GGTTTTAATCCGCTCCACTGCAA
* *
2796152 CTTCAGGGAGATAGGATCATTGGCTTT
1 CTTCAGGGAGATAGGATTATCGGCTTT
2796179 CGATCTGTTC
Statistics
Matches: 422, Mismatches: 36, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
216 54 0.13
217 368 0.87
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
CTTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
CATCTTCAGTCTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAAGAGATAAGATCCAA
GGTTTTAATCCGCTCCACTGCAA
Found at i:2807689 original size:15 final size:15
Alignment explanation
Indices: 2807669--2807716 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
2807659 TAATAAAAAT
*
2807669 ATAATAACAATAGTA
1 ATAATAATAATAGTA
* *
2807684 ATAATAATAATATTT
1 ATAATAATAATAGTA
*
2807699 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
2807714 ATA
1 ATA
2807717 TGAAGATAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:2807987 original size:20 final size:19
Alignment explanation
Indices: 2807964--2808001 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2807954 GAAAATAAGT
*
2807964 ATAGGTAAATAAATAAAATA
1 ATAGATAAATAAA-AAAATA
2807984 ATAGATAAATAAAAAAAT
1 ATAGATAAATAAAAAAAT
2808002 GCCTTGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAGATAAATAAAAAAATA
Found at i:2807996 original size:24 final size:25
Alignment explanation
Indices: 2807933--2808002 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
2807923 TTGAAGGAAT
*
2807933 AATAATAAATAAAT-AATAAATGAA
1 AATAATAGATAAATAAATAAATGAA
**
2807957 AAT-A-AGTATAGGTAAATAAAT-AA
1 AATAATAG-ATAAATAAATAAATGAA
*
2807980 AATAATAGATAAATAAAAAAATG
1 AATAATAGATAAATAAATAAATG
2808003 CCTTGGATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 22 0.63
25 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (25 bp):
AATAATAGATAAATAAATAAATGAA
Found at i:2809905 original size:42 final size:41
Alignment explanation
Indices: 2809847--2809986 Score: 154
Period size: 42 Copynumber: 3.4 Consensus size: 41
2809837 GTTATTGCTT
* *
2809847 CCTTTTGCAGTGTTTATAATAAAAACGCCGCTATAGCTCTAA
1 CCTTTTGCGGTGTTTATAA-AAAAACGCCACTATAGCTCTAA
* * * * *
2809889 CATTTTGCGGTATTTATGAAAAAAATGCCTCTATAGATCTAA
1 CCTTTTGCGGTGTTTAT-AAAAAAACGCCACTATAGCTCTAA
** * *
2809931 CCTTTTGCGACGTTTATGAAGAAACGCCACTATAGCTCTAA
1 CCTTTTGCGGTGTTTATAAAAAAACGCCACTATAGCTCTAA
*
2809972 CCTTTTGCAGTGTTT
1 CCTTTTGCGGTGTTT
2809987 TTTGATTAGC
Statistics
Matches: 79, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
41 31 0.39
42 46 0.58
43 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (41 bp):
CCTTTTGCGGTGTTTATAAAAAAACGCCACTATAGCTCTAA
Found at i:2815156 original size:10 final size:10
Alignment explanation
Indices: 2815141--2815185 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
2815131 AGAATATTTT
*
2815141 TTAAAAACAA
1 TTAAAAAAAA
2815151 TT-AAAAAAA
1 TTAAAAAAAA
2815160 TTAAAAAAAA
1 TTAAAAAAAA
2815170 TTAAAAAAAA
1 TTAAAAAAAA
2815180 TTAAAA
1 TTAAAA
2815186 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:2816090 original size:20 final size:21
Alignment explanation
Indices: 2816043--2816092 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
2816033 TTTTTACTTA
2816043 ATGTTAATTTTAAATATTTTT
1 ATGTTAATTTTAAATATTTTT
2816064 ATGTTAATTTTAAATATTTTT
1 ATGTTAATTTTAAATATTTTT
2816085 AT-TTAATT
1 ATGTTAATT
2816093 AAAAATGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 6 0.21
21 23 0.79
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATGTTAATTTTAAATATTTTT
Found at i:2816098 original size:20 final size:21
Alignment explanation
Indices: 2816043--2816098 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
2816033 TTTTTACTTA
**
2816043 ATGTTAATTTTAAATATTTTT
1 ATGTTAATTAAAAATATTTTT
**
2816064 ATGTTAATTTTAAATATTTTT
1 ATGTTAATTAAAAATATTTTT
2816085 AT-TTAATTAAAAAT
1 ATGTTAATTAAAAAT
2816099 GTCACATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
ATGTTAATTAAAAATATTTTT
Found at i:2818040 original size:16 final size:17
Alignment explanation
Indices: 2818015--2818054 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2818005 GCCCAAATGC
2818015 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
2818030 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
2818047 C-AAGCCCA
1 CAAAGCCCA
2818055 TTACAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:2821452 original size:19 final size:19
Alignment explanation
Indices: 2821428--2821474 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2821418 ACGTCTCTTT
*
2821428 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
2821447 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
2821466 TATGCATTA
1 TTTGCATTA
2821475 GATTTTCTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:2822778 original size:8 final size:8
Alignment explanation
Indices: 2822758--2822858 Score: 53
Period size: 8 Copynumber: 11.9 Consensus size: 8
2822748 TCAGACTCAA
2822758 AAAAAAAT
1 AAAAAAAT
*
2822766 -CAAAAAT
1 AAAAAAAT
2822773 AAAAAAAAT
1 -AAAAAAAT
2822782 AAAAAAAAT
1 -AAAAAAAT
*
2822791 CAAAAAAT
1 AAAAAAAT
2822799 AAAAATAA-
1 AAAAA-AAT
2822807 AAAATCAAAT
1 AAAA--AAAT
**
2822817 TCAAAAAT
1 AAAAAAAT
*
2822825 AGGAGAAAAAG
1 A--A-AAAAAT
*
2822836 AAAAAAAG
1 AAAAAAAT
*
2822844 AAAAAAAG
1 AAAAAAAT
2822852 AAAAAAA
1 AAAAAAA
2822859 AAAGAAAAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
7 6 0.08
8 40 0.53
9 20 0.27
10 3 0.04
11 6 0.08
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:2822779 original size:9 final size:9
Alignment explanation
Indices: 2822767--2822803 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
2822757 AAAAAAAATC
2822767 AAAAATAAA
1 AAAAATAAA
2822776 AAAAATAAA
1 AAAAATAAA
*
2822785 AAAAAT-CA
1 AAAAATAAA
2822793 AAAAATAAA
1 AAAAATAAA
2822802 AA
1 AA
2822804 TAAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:2822791 original size:25 final size:25
Alignment explanation
Indices: 2822756--2822825 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 25
2822746 GTTCAGACTC
2822756 AAAAAAAAATCAAAAATAAAAA-AA
1 AAAAAAAAATCAAAAATAAAAATAA
2822780 ATAAAAAAAATCAAAAAATAAAAATAA
1 A-AAAAAAAATC-AAAAATAAAAATAA
* *
2822807 AAAATCAAATTCAAAAATA
1 AAAA-AAAAATCAAAAATA
2822826 GGAGAAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 1 0.03
25 10 0.25
26 21 0.52
27 8 0.20
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (25 bp):
AAAAAAAAATCAAAAATAAAAATAA
Found at i:2822797 original size:21 final size:21
Alignment explanation
Indices: 2822756--2822815 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
2822746 GTTCAGACTC
*
2822756 AAAAAAAAATCAAAAATAAAAAAA
1 AAAAAAAAATC--AAA-AAATAAA
2822780 ATAAAAAAAATCAAAAAATAAA
1 A-AAAAAAAATCAAAAAATAAA
*
2822802 AATAAAAAATCAAA
1 AAAAAAAAATCAAA
2822816 TTCAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 12 0.36
22 7 0.21
23 3 0.09
24 1 0.03
25 10 0.30
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAAAAAATCAAAAAATAAA
Found at i:2822866 original size:8 final size:8
Alignment explanation
Indices: 2822830--2822868 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
2822820 AAAATAGGAG
2822830 AAAAAGAA
1 AAAAAGAA
2822838 AAAAAGAA
1 AAAAAGAA
2822846 AAAAAGAA
1 AAAAAGAA
*
2822854 AAAAAAAA
1 AAAAAGAA
2822862 GAAAAAG
1 -AAAAAG
2822869 GAGAGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:2823657 original size:6 final size:7
Alignment explanation
Indices: 2823640--2823665 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2823630 TTGAGTCAAA
2823640 AAAAATG
1 AAAAATG
2823647 AAAAATG
1 AAAAATG
2823654 AAAAATG
1 AAAAATG
2823661 AAAAA
1 AAAAA
2823666 GTAAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:2825098 original size:87 final size:87
Alignment explanation
Indices: 2824952--2825157 Score: 277
Period size: 87 Copynumber: 2.4 Consensus size: 87
2824942 ATACAAGCTA
* * * * * *
2824952 TGTCTCCATCGGTTGCGGTGGAACTGGTTGAAGATAGCAGATCTGGCCTTCCTGCGTTAACAGCG
1 TGTCTCCATCGGTTGCAGTGGAGCTGATTGAAGATAGCAGAACTGGCCTTCCGGCGTTAACAACG
* *
2825017 AAGCAGATTGAAAATAAAGCCT
66 AAGCAGATCGAAAACAAAGCCT
* * * *
2825039 TGTCTCCATCGGTTGTAGTGGAGCTGATTGAAGATAGCAGAACTTGCCTTTCGGTGTTAACAACG
1 TGTCTCCATCGGTTGCAGTGGAGCTGATTGAAGATAGCAGAACTGGCCTTCCGGCGTTAACAACG
2825104 AAGCAGATCGAAAACAAAGCCT
66 AAGCAGATCGAAAACAAAGCCT
* * *
2825126 TGCCTTCATCGGTTGCAGTGAAGCTGATTGAA
1 TGTCTCCATCGGTTGCAGTGGAGCTGATTGAA
2825158 TAAAGGATAT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (87 bp):
TGTCTCCATCGGTTGCAGTGGAGCTGATTGAAGATAGCAGAACTGGCCTTCCGGCGTTAACAACG
AAGCAGATCGAAAACAAAGCCT
Found at i:2825258 original size:46 final size:46
Alignment explanation
Indices: 2825201--2827476 Score: 842
Period size: 44 Copynumber: 51.7 Consensus size: 46
2825191 GTAGATCGCA
* * * *
2825201 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * * * *
2825247 TTAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAG--CT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
** * * * * *
2825291 AGAAATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * * * *
2825337 T-A-ATCCTATCTCCCTGAGATTACAATGGAACGGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
** * ** * *
2825378 AAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * * * *
2825420 CCAGGTCTTATTTCCCTGAGATTACAGCGGAACAGATCAAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * *
2825466 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCAA-G
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATT
* * * *
2825512 T-A-ATCCTATCTCCCTAAGATTACAGTAGAGCAGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
** * ** * *
2825553 AAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * * * * *
2825595 CCCGGTCTTTTTTCCCTAAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* *
2825641 TCAGATCTTAGCTCCCTGAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* *
2825687 TCAGATCTTAGCTCCCTGAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* *
2825733 TCAGATCTTAGCTCCCTGAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * * *
2825779 TCAGATCTTAGCTCCCTGAGATTACAGTAGAGCAAAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
** * ** * *
2825822 AAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * * * *
2825864 CCAGGTCTTTTTTCCCTAAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * * * *
2825910 TCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2825956 T-A-AT-TCCATTTCCCTGAGATTACAGTGGAGC-GTAT-TAA-AA-T
1 TCAGATCT-TATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * ** * *
2825997 AAAGGATCTTATCTCTCTGA-AGTTATAGCAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * * *
2826039 CCAGGTCTTATTTTCCTGAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * * * * * *
2826085 TCAGATCTGATCTCCCTGAGATTATAGCGGAGCATATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2826131 T-A-ATCCTATCCCCCTGAGATTACAGTGGAACAGATCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * * * * * *
2826175 TCAGATCTGATCTCCCTGAGATTATAGCGGAGCATATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * * * *
2826221 T-A-ATCCTATCCCCCGGAGATTACAGTGGAGC-GTAT--TACAA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * ** * *
2826262 AAAGGATCTTATCTCTCTGA-AGTTATAGCAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2826304 CCAGGA-CTTATTTTCCTGAGATTACAGTGGAACAGATCGAAGAATT
1 TCA-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
* * * * * * *
2826350 TCAGATCTGATCTCCCTGAGATTATAGCGGAGCATATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * * *
2826396 T-A-ATCCTATCCCCCTGAGATTACAGTGGAGCGGAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
** * * * *
2826437 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2826479 TCAGGTCTTATTTCCTTGAGATTACAGTGGAACAGA-CTGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGAATT
* * * *
2826525 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2826571 T-A-ATCCTATCTCCCTGCGATTACAGTGGAGC-GTAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * * *
2826612 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2826654 TCAGGTCTTATTTCCTTGAGATTACAGTGGAACAGA-CTGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGAATT
* * * *
2826700 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2826746 T-A-ATCCTATCTCCCTGCGATTACAGTGGAGC-GTAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * * *
2826787 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2826829 TCAGGTCTTATTTCCTTGAGATTACAGTGGAACAGA-CTGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGAATT
* * * *
2826875 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2826921 T-A-ATCCTATCTCCCTGCGATTACAGTGGAGC-GTAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * * *
2826962 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2827004 TCAGGTCTTATTTCCTTGAGATTACAGTGGAACAGA-CTGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGAATT
* * * *
2827050 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2827096 T-A-ATCCTATCTCCCTGCGATTACAGTGGAGC-GTAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * * *
2827137 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2827179 TCAGGTCTTATTTCCTTGAGATTACAGTGGAACAGA-CTGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGAATT
* * * *
2827225 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* * *
2827271 T-A-ATCCTATCTCCCTGCGATTACAGTGGAGC-GTAT-TAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGAATT
** * * * *
2827312 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATT
* * * *
2827354 TCAGGTCTTATTTCCTTGAGATTACAGTGGAACAGA-CTGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATC-GAAGAATT
* * * *
2827400 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-T
* *
2827446 T-A-ATCCTATCTCCCTGCGATTACAGTGGAGC
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGC
2827477 GGATTAAAAT
Statistics
Matches: 1640, Mismatches: 407, Indels: 368
0.68 0.17 0.15
Matches are distributed among these distances:
40 6 0.00
41 267 0.16
42 35 0.02
43 54 0.03
44 655 0.40
45 42 0.03
46 579 0.35
47 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT
Found at i:2825505 original size:175 final size:175
Alignment explanation
Indices: 2825295--2827544 Score: 2648
Period size: 175 Copynumber: 12.8 Consensus size: 175
2825285 GAAGCTAGAA
* * *
2825295 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
* * * *
2825360 AATGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
* * *
2825425 TCTTATTTCCCTGAGATTACAGCGGAACAGA-TCAAAGAATTTCAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACT-GAAGAATTTTAG
*
2825470 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCA-AGTAATCCTATCTCCCTAAGATTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAGTAATCCTATCTCCCTGAGATTA
* * * * *
2825534 CAGTAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCCG
65 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
* * *
2825599 GTCTTTTTTCCCTAAGATTACAGTGGAACAGA-TCGAAGAATTTCAG
130 GTCTTATTTCCCTGAGATTACAGTGGAACAGACT-GAAGAATTTTAG
* * * * * * *
2825645 ATCTTAGCTCCCTGAGATTACAGTGGAACAGATCGAAGA-ATTTCAGATCTTAGCTCCCTGAGAT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATA-GT-A-ATCCTATCTCCCTGAGAT
* * * ** * * * **
2825709 TACAGTGGAACAGATCGAAGAATTTCA-GATCTTAGCTCCCTG-AGATTACAGTGGAACAGATCG
63 TACAGTGGAGCGGAT-TAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATC-
* * ** * * * * **
2825772 AAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTAGAGCA-AATTAA-AA-TAAAGG
123 --GCA--TCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTA-G
* * * * * ** * * * * *
2825827 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-CCAG--GTCTTTTTTCCCTAAGATTA
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * * ** ** * * *
2825888 CAGTGGAACAGATCGAAGAATTTCA-GATCTTATCTCTCTG-AGATTACAGCGGAGCAGATTGAA
65 CAGTGGAGCGGAT-TAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCA
* * * * **
2825951 GCTA-GTAATTCCATTTCCCTGAGATTACAGTGGAGC-GTA-TTAA-AA-TAAAGG
126 TC-AGGT-CTT--ATTTCCCTGAGATTACAGTGGAACAG-ACTGAAGAATTTTA-G
* * * * * * ** * * * *
2826002 ATCTTATCTCTCTGA-AGTTATAGCAGAGTAGATCGCA-CCAG--GTCTTATTTTCCTGAGATTA
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * * ** * * * ** * * * *
2826063 CAGTGGAACAGATCGAAGAATTTCA-GATCTGATCTCCCTG-AGATTATAGCGGAGCATATTGAA
65 CAGTGGAGCGGAT-TAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCA
* * * ** *
2826126 GCTAGTAATCCTATCCCCCTGAGATTACAGTGGAACAGA-TCGAAGAATTTCAG
126 TC-AG--GTCTTATTTCCCTGAGATTACAGTGGAACAGACT-GAAGAATTTTAG
* * * * * *
2826179 ATCTGATCTCCCTGAGATTATAGCGGAGCATATTGAAGCTAGTAATCCTATCCCCCGGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
* * * * *
2826244 AGTGGAGCGTATTACAATAAAGGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATCGCACCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
* * *
2826309 ACTTATTTTCCTGAGATTACAGTGGAACAGA-TCGAAGAATTTCAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACT-GAAGAATTTTAG
* * * * *
2826354 ATCTGATCTCCCTGAGATTATAGCGGAGCATATTGAAGCTAGTAATCCTATCCCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
2826419 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2826484 TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
*
2826529 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGCGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
*
2826594 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2826659 TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
*
2826704 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGCGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
*
2826769 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2826834 TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
*
2826879 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGCGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
*
2826944 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2827009 TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
*
2827054 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGCGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
*
2827119 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2827184 TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
*
2827229 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGCGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
*
2827294 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2827359 TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
131 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
*
2827404 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGCGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
* ** *
2827469 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGTTTCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
*
2827534 TCTTATCTCCC
131 TCTTATTTCCC
2827545 AAAGTGGAGC
Statistics
Matches: 1892, Mismatches: 146, Indels: 74
0.90 0.07 0.04
Matches are distributed among these distances:
172 2 0.00
173 3 0.00
174 5 0.00
175 1577 0.83
176 6 0.00
177 134 0.07
178 42 0.02
179 31 0.02
180 26 0.01
181 3 0.00
182 34 0.02
183 3 0.00
184 26 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTTAG
Found at i:2825718 original size:92 final size:92
Alignment explanation
Indices: 2825607--2825806 Score: 391
Period size: 92 Copynumber: 2.2 Consensus size: 92
2825597 CGGTCTTTTT
*
2825607 TCCCTAAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGA
1 TCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGA
2825672 ACAGATCGAAGAATTTCAGATCTTAGC
66 ACAGATCGAAGAATTTCAGATCTTAGC
2825699 TCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGA
1 TCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGA
2825764 ACAGATCGAAGAATTTCAGATCTTAGC
66 ACAGATCGAAGAATTTCAGATCTTAGC
2825791 TCCCTGAGATTACAGT
1 TCCCTGAGATTACAGT
2825807 AGAGCAAATT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 107 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (92 bp):
TCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGA
ACAGATCGAAGAATTTCAGATCTTAGC
Found at i:2825909 original size:269 final size:267
Alignment explanation
Indices: 2825432--2825951 Score: 853
Period size: 269 Copynumber: 1.9 Consensus size: 267
2825422 AGGTCTTATT
*
2825432 TCCCTGAGATTACAGCGGAACAGATCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGA
1 TCCCTGAGATTACAGCGGAACAGATCAAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGCGGA
* * * *
2825497 GCAGATTGAAGCAAGTAATCCTATCTCCCTAAGATTACAGTAGAGCAGATTAAAATAAAGGATCT
66 ACAGATCGAAGCAAGTAATCCTAGCTCCCTAAGATTACAGTAGAGCAAATTAAAATAAAGGATCT
*
2825562 TATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCCGGTCTTTTTTCCCTAAGATTACAGTGGAA
131 TATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTTTTTCCCTAAGATTACAGTGGAA
*
2825627 CAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGA
196 CAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGCGGAACAGATCGAAGAATTTCAGA
2825692 TCTTAGC
261 TCTTAGC
* * *
2825699 TCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGTGGA
1 TCCCTGAGATTACAGCGGAACAGATCAAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGCGGA
* * *
2825764 ACAGATCGAAG-AATTTCAGATCTTAGCTCCCTGAGATTACAGTAGAGCAAATTAAAATAAAGGA
66 ACAGATCGAAGCAA-GT-A-ATCCTAGCTCCCTAAGATTACAGTAGAGCAAATTAAAATAAAGGA
2825828 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTTTTTCCCTAAGATTACAGTG
128 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTTTTTCCCTAAGATTACAGTG
* * * *
2825893 GAACAGATCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG
193 GAACAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGCGGAACAGATCGAAG
2825952 CTAGTAATTC
Statistics
Matches: 233, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
266 2 0.01
267 71 0.30
268 1 0.00
269 159 0.68
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (267 bp):
TCCCTGAGATTACAGCGGAACAGATCAAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGCGGA
ACAGATCGAAGCAAGTAATCCTAGCTCCCTAAGATTACAGTAGAGCAAATTAAAATAAAGGATCT
TATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTTTTTCCCTAAGATTACAGTGGAA
CAGATCGAAGAATTTCAGATCTTAGCTCCCTGAGATTACAGCGGAACAGATCGAAGAATTTCAGA
TCTTAGC
Found at i:2832442 original size:21 final size:22
Alignment explanation
Indices: 2832416--2832457 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
2832406 ATTACTGAAT
*
2832416 AGAAAAACAGA-AAAAATTCAG
1 AGAAAAAAAGACAAAAATTCAG
2832437 AGAAAAAAAGATCAAAAATTC
1 AGAAAAAAAGA-CAAAAATTC
2832458 GAAAGGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.12
Consensus pattern (22 bp):
AGAAAAAAAGACAAAAATTCAG
Found at i:2840388 original size:44 final size:45
Alignment explanation
Indices: 2840331--2840445 Score: 157
Period size: 44 Copynumber: 2.6 Consensus size: 45
2840321 CTACAACATC
*
2840331 GGTACATAATACTTGTTGAATATAAATGG-AACATAGCCAACA-CT
1 GGTACATAGTACTTGTTGAATATAAATGGCAA-ATAGCCAACACCT
* *
2840375 GGTACATAGTACTTGCTGAATATAAATGGCAAGTAGCCAACACCT
1 GGTACATAGTACTTGTTGAATATAAATGGCAAATAGCCAACACCT
2840420 GG-ACATAGTACCTT-TTGAATATAAAT
1 GGTACATAGTA-CTTGTTGAATATAAAT
2840446 CCTAATGACA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
44 55 0.86
45 9 0.14
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (45 bp):
GGTACATAGTACTTGTTGAATATAAATGGCAAATAGCCAACACCT
Found at i:2844407 original size:51 final size:51
Alignment explanation
Indices: 2844306--2844412 Score: 126
Period size: 57 Copynumber: 2.0 Consensus size: 51
2844296 CATTTCCAAG
* *
2844306 TCATTTTCATTTTGGAGAAAACCATATTCATTTCCAAATGATTTCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCATAATCATTTCCAAATG---T--TTTCT-CATTT
*
2844363 TCATTTTCATTTAGGAGAAAAGCATAATCATTTCCAAATG-TTTCTCATTT
1 TCATTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGTTTTCTCATTT
2844413 ATACATATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
50 5 0.11
51 5 0.11
57 37 0.79
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (51 bp):
TCATTTTCATTTAGGAGAAAACCATAATCATTTCCAAATGTTTTCTCATTT
Found at i:2851662 original size:14 final size:14
Alignment explanation
Indices: 2851645--2851693 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
2851635 GTAATGCAAA
*
2851645 AATATGGCCGTTGG
1 AATATGACCGTTGG
* **
2851659 AATATGACTGTTAC
1 AATATGACCGTTGG
*
2851673 AATATGATCGTTGG
1 AATATGACCGTTGG
2851687 AATATGA
1 AATATGA
2851694 TCATTGCAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (14 bp):
AATATGACCGTTGG
Found at i:2851694 original size:14 final size:14
Alignment explanation
Indices: 2851653--2851705 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
2851643 AAAATATGGC
*
2851653 CGTTGGAATATGA-
1 CGTTGCAATATGAT
*
2851666 CTGTTACAATATGAT
1 C-GTTGCAATATGAT
*
2851681 CGTTGGAATATGAT
1 CGTTGCAATATGAT
*
2851695 CATTGCAATAT
1 CGTTGCAATAT
2851706 AAACATTGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (14 bp):
CGTTGCAATATGAT
Found at i:2854606 original size:18 final size:19
Alignment explanation
Indices: 2854577--2854612 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2854567 GCTTCTTTGC
2854577 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATGAATGAT
*
2854596 TTAAG-TGAAATTAATGA
1 TTAAGTTGAAATGAATGA
2854613 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
TTAAGTTGAAATGAATGAT
Found at i:2856938 original size:51 final size:51
Alignment explanation
Indices: 2856804--2857203 Score: 441
Period size: 51 Copynumber: 7.9 Consensus size: 51
2856794 AGTGAAAGTG
* *
2856804 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
2856853 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
2856904 TTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
2856956 ATGGCCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
2857006 TTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
2857058 ATGGCCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
2857108 TTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
2857160 ATGGCCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
2857204 AACATCATTG
Statistics
Matches: 285, Mismatches: 58, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.01
50 42 0.15
51 237 0.83
52 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:2856998 original size:102 final size:102
Alignment explanation
Indices: 2856808--2857196 Score: 710
Period size: 102 Copynumber: 3.8 Consensus size: 102
2856798 AAAGTGATGG
* * * * *
2856808 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGG-ATGGTAATGGCCACATGTGTAGT
2856871 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
2856909 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
2856974 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
66 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
2857011 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
2857076 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
66 CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
2857113 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
2857178 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
2857197 TGAACCGAAC
Statistics
Matches: 281, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
100 4 0.01
101 40 0.14
102 237 0.84
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGCCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:2857198 original size:26 final size:26
Alignment explanation
Indices: 2857118--2857198 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
2857108 TTCGATCACG
*
2857118 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
* * *
2857144 CGTGTA-T-CGGATG-GTAATGGCCAC-A
1 TGTGTAGTAC-TATGTG-AA-GGCTACTA
*
2857169 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
2857195 TGTG
1 TGTG
2857199 AACCGAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGAAGGCTACTA
Found at i:2857291 original size:45 final size:45
Alignment explanation
Indices: 2857200--2857294 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
2857190 TACTATGTGA
* *
2857200 ACCGAACATCATTGATTACTAAAGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
* * *
2857245 ACCGGACATCATTTATTAATAAGGTGGTTGCTATGTG-TAGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCT-GAATCC
2857290 ACCGA
1 ACCGA
2857295 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:2863649 original size:27 final size:28
Alignment explanation
Indices: 2863610--2863664 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
2863600 TATTGAATAA
2863610 CAAGGGAGTTGCTAAGTGCTGATTCCCT
1 CAAGGGAGTTGCTAAGTGCTGATTCCCT
2863638 CAAGGG-GTTGCTAAGTGCTGATTCCCT
1 CAAGGGAGTTGCTAAGTGCTGATTCCCT
2863665 GACTCTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (28 bp):
CAAGGGAGTTGCTAAGTGCTGATTCCCT
Found at i:2863783 original size:33 final size:33
Alignment explanation
Indices: 2863741--2863867 Score: 105
Period size: 33 Copynumber: 3.5 Consensus size: 33
2863731 TAACAAGGGA
2863741 GTTGCTAAGTGCTGATTCCCTGACTCTTTGGTG
1 GTTGCTAAGTGCTGATTCCCTGACTCTTTGGTG
* *
2863774 GTTGCTAAGTGCTAATTCCACCAT-A-TCCTTGAATGTGAAAGGG
1 GTTGCTAAGTGCTGATT-C-CC-TGACT-C-T---T-TG---GTG
*
2863817 GTTGCTAAGTGCTGATTCCCCGACTCTTTGGTG
1 GTTGCTAAGTGCTGATTCCCTGACTCTTTGGTG
2863850 GTTGCTAAGTGCTGATTC
1 GTTGCTAAGTGCTGATTC
2863868 TACCATATCC
Statistics
Matches: 75, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
33 36 0.48
34 2 0.03
35 4 0.05
36 4 0.05
37 1 0.01
39 1 0.01
40 3 0.04
41 4 0.05
42 2 0.03
43 18 0.24
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.35
Consensus pattern (33 bp):
GTTGCTAAGTGCTGATTCCCTGACTCTTTGGTG
Found at i:2863821 original size:43 final size:43
Alignment explanation
Indices: 2863773--2863991 Score: 169
Period size: 33 Copynumber: 5.5 Consensus size: 43
2863763 ACTCTTTGGT
*
2863773 GGTTGCTAAGTGCTAATTCCACCATATCCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAAGG
* *
2863816 GGTTGCTAAGTGCTGATTCC-CC-GA--CTCT---T-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCATATCCT-TGAATGTGAAAGG
*
2863849 GGTTGCTAAGTGCTGATTCTACCATATCCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAAGG
2863892 GGTTGCTAAGTGCTGATTCC-CCGA-ATCAC-TG---GT------
1 GGTTGCTAAGTGCTGATTCCACC-ATATC-CTTGAATGTGAAAGG
*
2863925 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGTAAAAAAAGGG
1 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGT---GAAA-GG
2863972 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
2863992 CCGAATCACT
Statistics
Matches: 139, Mismatches: 7, Indels: 56
0.69 0.03 0.28
Matches are distributed among these distances:
33 42 0.30
34 9 0.06
35 1 0.01
36 3 0.02
37 5 0.04
39 5 0.04
40 3 0.02
41 1 0.01
42 9 0.06
43 41 0.29
47 20 0.14
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAAGG
Found at i:2863852 original size:76 final size:76
Alignment explanation
Indices: 2863735--2864027 Score: 426
Period size: 76 Copynumber: 3.8 Consensus size: 76
2863725 ATTGAATAAC
* * **
2863735 AAGGGAGTTGCTAAGTGCTGATTCCCTGACTCTTTGGTGGTTGCTAAGTGCTAATTCCACCATAT
1 AAGGG-GTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTAATTCCACCATAT
2863800 CCTTGAATGTGA
65 CCTTGAATGTGA
* ** * *
2863812 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCTTTGGTGGTTGCTAAGTGCTGATTCTACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTAATTCCACCATATC
2863877 CTTGAATGTGA
66 CTTGAATGTGA
*
2863888 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTAATTCCACCATATC
*
2863953 CTTGAATGTAAAAA
66 CTTGAATGT---GA
2863967 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAA-TCCACC
1 AA-GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCT-AATTCCACC
2864028 GATAACGGTT
Statistics
Matches: 202, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
76 138 0.68
77 5 0.02
79 3 0.01
80 55 0.27
81 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTAATTCCACCATATC
CTTGAATGTGA
Found at i:2871112 original size:33 final size:32
Alignment explanation
Indices: 2871043--2871112 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 32
2871033 TTTTAAGAAA
*
2871043 TAATATTATAATTAAAATATGAATAAAATTATT
1 TAATATTATAATTAAAATA-GAATAAAACTATT
2871076 TAATATTATAATATAAAA-A-ACATAAAACTATAT
1 TAATATTATAAT-TAAAATAGA-ATAAAACTAT-T
2871109 TAAT
1 TAAT
2871113 TTAGAGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 1 0.03
32 9 0.27
33 18 0.55
34 5 0.15
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (32 bp):
TAATATTATAATTAAAATAGAATAAAACTATT
Found at i:2879649 original size:93 final size:93
Alignment explanation
Indices: 2879540--2879720 Score: 344
Period size: 93 Copynumber: 1.9 Consensus size: 93
2879530 TAAACGTATA
2879540 CTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATATATGTATAGGAGGTAATGAAA
1 CTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATATATGTATAGGAGGTAATGAAA
2879605 ATAAAATAATAATAGAATATATATAGAG
66 ATAAAATAATAATAGAATATATATAGAG
2879633 CTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATATATGTATAGGAGGTAATGAAA
1 CTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATATATGTATAGGAGGTAATGAAA
* *
2879698 ATAAAGTAATAATAGACTATATA
66 ATAAAATAATAATAGAATATATA
2879721 AATATATATA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (93 bp):
CTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATATATGTATAGGAGGTAATGAAA
ATAAAATAATAATAGAATATATATAGAG
Found at i:2881200 original size:50 final size:50
Alignment explanation
Indices: 2881117--2881489 Score: 289
Period size: 50 Copynumber: 7.5 Consensus size: 50
2881107 ATAAGACTTA
* *
2881117 TAGCTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCG
1 TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
* * ** *** * * *
2881167 TAGCTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCTGTCGTTG
1 TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
* * * * * *
2881217 TGGCTTCAATCTTTTTAATTGCAATTTCAGAGAAACCAGATCCGCCGTCG
1 TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
* * ** *** * * *
2881267 TAGCTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCTGTCGTTG
1 TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
* * * * *
2881317 TGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCG
1 TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
* * * *** *
2881367 TAGCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTG
1 TAGCTTCAATCTGTTCAACTGCAATGTC-AGGGAAACCAGATCCGCCGTCG
* * * * * * * *
2881417 TGGCTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCTGCCATCG
1 TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
*
2881467 TAGCTTCAATCTGTTCCACTGCA
1 TAGCTTCAATCTGTTCAACTGCA
2881490 CTGCTAAGGA
Statistics
Matches: 229, Mismatches: 92, Indels: 4
0.70 0.28 0.01
Matches are distributed among these distances:
49 1 0.00
50 227 0.99
51 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
TAGCTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCG
Found at i:2881256 original size:100 final size:100
Alignment explanation
Indices: 2881119--2881490 Score: 577
Period size: 100 Copynumber: 3.7 Consensus size: 100
2881109 AAGACTTATA
* * * *
2881119 GCTTCAAT-TTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTC
1 GCTTCAATCTT-TTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTC
2881183 CACCGCACCGTCAGGGAAGTAAGATCTGTCGTTGTG
65 CACCGCACCGTCAGGGAAGTAAGATCTGTCGTTGTG
* *
2881219 GCTTCAATCTTTTTAATTGCAATTTCAGAGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC
2881284 ACCGCACCGTCAGGGAAGTAAGATCTGTCGTTGTG
66 ACCGCACCGTCAGGGAAGTAAGATCTGTCGTTGTG
2881319 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC
* * * * *
2881384 ACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTG
66 ACCGCACCGTC-AGGGAAGTAAGATCTGTCGTTGTG
* * *
2881419 GCTTCAATCTTTTTAATTACAATATCAGGGAAACCAGATCTGCCATCGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC
*
2881484 ACTGCAC
66 ACCGCAC
2881491 TGCTAAGGAG
Statistics
Matches: 255, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
99 1 0.00
100 252 0.99
101 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (100 bp):
GCTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC
ACCGCACCGTCAGGGAAGTAAGATCTGTCGTTGTG
Found at i:2881510 original size:50 final size:50
Alignment explanation
Indices: 2881354--2881508 Score: 143
Period size: 50 Copynumber: 3.1 Consensus size: 50
2881344 CAGGGAAACC
*
2881354 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAGGTA
* * * ** * * * * * **
2881404 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACAAT-ATCAGG-GAAA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAGGTA
* *
2881452 CCAGATCTGCCATCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAGGTA
1 --AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAGGTA
2881504 AGATC
1 AGATC
2881509 TGAAATCTTC
Statistics
Matches: 74, Mismatches: 27, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
48 1 0.01
49 4 0.05
50 63 0.85
51 4 0.05
52 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAGGTA
Found at i:2881667 original size:132 final size:132
Alignment explanation
Indices: 2881503--2882541 Score: 1471
Period size: 132 Copynumber: 7.9 Consensus size: 132
2881493 CTAAGGAGGT
*
2881503 AAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
* *
2881568 CTCCACTGTAACTACAGGGAGGTAATATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
2881633 AC
131 AC
* * *
2881635 AAGATTTGAAATCCTCAATCTATTCCGTTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTA
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
* * * *
2881700 CTCCATTGTAACCAGAGGGACGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
2881765 AC
131 AC
* * *
2881767 AAGATTTGAAATCCTCAATCTATTCCGCTGCTGTCCAGGGAAGTAGACTTACTGGCTTCAATGTA
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
* * * *
2881832 CTCCATTGTAACCAGAGGGACGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
2881897 AC
131 AC
*
2881899 AAGATTTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
* * * * * *
2881964 CTCCATTGTAACCACAGGGACGTAAAATCTGCCATATTTGATCTACTCCGCTACTGCTTAGGGAA
66 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
2882029 AC
131 AC
* *
2882031 AATATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
* *
2882096 CTCCACTGTAACTACAGGGAGGTAATATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
66 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
2882161 AC
131 AC
* ** * *
2882163 AAGATCTGAAATCTTCAATCTATTCTACTGCTAT-CTAGAGAAGTAGAATTACTGGCTTCAATGT
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAG-GAAGTAGAATTACTGGCTTCAATGT
* *
2882227 ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTCGATCTGCTTCTCTATCTA-TGC--A
65 ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC-TC-C-A-CTACTGCTTA
*
2882289 GGAAGAC
126 GGGAGAC
* * * * * * *
2882296 AAGATCTAAAATCTTCAGTCTATTCCACTGCTG-CCCAGGGAGATAGAATTACTGGCTTTAATGT
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAG-TAGAATTACTGGCTTCAATGT
* * * * *
2882360 ACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTTCTCCACTACTACTTAGGGA
65 ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGA
*
2882425 GAT
130 GAC
* * * *
2882428 AAGATCTGAAATCCTCAATCTATTCCACTGCTG-CCCAGGGAGATTGAATTACTGGCTTCAATGT
1 AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAG-TAGAATTACTGGCTTCAATGT
*
2882492 ACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCC
65 ACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTTGATCTGCTCC
2882542 GCTGTCTATG
Statistics
Matches: 831, Mismatches: 65, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
129 3 0.00
130 3 0.00
131 5 0.01
132 708 0.85
133 104 0.13
134 1 0.00
135 4 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTA
CTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
AC
Found at i:2883912 original size:22 final size:22
Alignment explanation
Indices: 2883887--2883933 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
2883877 TTAGCCTCTC
*
2883887 CATTTTTA-CTTTTTCATTTTTT
1 CATTTTCATCTTTTT-ATTTTTT
2883909 CATTTTCATCTTTTTATTTTTT
1 CATTTTCATCTTTTTATTTTTT
2883931 CAT
1 CAT
2883934 ATCACTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (22 bp):
CATTTTCATCTTTTTATTTTTT
Found at i:2884867 original size:20 final size:20
Alignment explanation
Indices: 2884842--2884879 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2884832 GGTTTGGCAG
2884842 AAAAAATCCAAAAGAATGGA
1 AAAAAATCCAAAAGAATGGA
**
2884862 AAAAAATCGTAAAGAATG
1 AAAAAATCCAAAAGAATG
2884880 AAAGAACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.08, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAAAATCCAAAAGAATGGA
Found at i:2888407 original size:22 final size:21
Alignment explanation
Indices: 2888381--2888450 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
2888371 GTAATAATAG
2888381 ACTATATAAATATATATCGTAT
1 ACTATATAAA-ATATATCGTAT
** *
2888403 ACTATA-AAAACGTAT-GTAC
1 ACTATATAAAATATATCGTAT
*
2888422 ACTATATAAAAATCTATGCGTAT
1 ACTATAT-AAAATATAT-CGTAT
2888445 A-TATAT
1 ACTATAT
2888451 GTATAGGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.24
20 4 0.11
21 10 0.26
22 11 0.29
23 4 0.11
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (21 bp):
ACTATATAAAATATATCGTAT
Found at i:2888413 original size:103 final size:102
Alignment explanation
Indices: 2888281--2888491 Score: 368
Period size: 103 Copynumber: 2.1 Consensus size: 102
2888271 AAAAAATATT
* *
2888281 TATATATATATAAACGTATACTATAAAAACGTATGTACACTATATAAACATCTATGCGTATATAT
1 TATATAAATATAAACGTATACTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATAT
* *
2888346 ATGTATAGGAGGTAATGAAAATAAAGTAATAATAGAC
66 ATGTATAGGAGGTAATGAAAATAAAATAATAATAGAA
*
2888383 TATATAAATATATATCGTATACTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATA
1 TATATAAATATA-AACGTATACTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATA
2888448 TATGTATAGGAGGTAATGAAAATAAAATAATAATAGAA
65 TATGTATAGGAGGTAATGAAAATAAAATAATAATAGAA
2888486 TATATA
1 TATATA
2888492 TAGAGAGAGA
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 11 0.11
103 92 0.89
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (102 bp):
TATATAAATATAAACGTATACTATAAAAACGTATGTACACTATATAAAAATCTATGCGTATATAT
ATGTATAGGAGGTAATGAAAATAAAATAATAATAGAA
Found at i:2890018 original size:25 final size:25
Alignment explanation
Indices: 2889973--2890031 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
2889963 AAACTTACCA
* * *
2889973 ATTCATG-CTTGATTAGCATTAACC
1 ATTCATGCCTTCACTAGAATTAACC
*
2889997 ATTCATGCCTTCACTAGAATTAAGC
1 ATTCATGCCTTCACTAGAATTAACC
*
2890022 ATACATGCCT
1 ATTCATGCCT
2890032 CAAATAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (25 bp):
ATTCATGCCTTCACTAGAATTAACC
Found at i:2891400 original size:15 final size:15
Alignment explanation
Indices: 2891377--2891411 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2891367 TACAACTCTG
*
2891377 TAAAGATTATCAAAT
1 TAAAAATTATCAAAT
2891392 TAAAAATTATCAAAT
1 TAAAAATTATCAAAT
*
2891407 CAAAA
1 TAAAA
2891412 TTTAACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAAAATTATCAAAT
Found at i:2895429 original size:8 final size:8
Alignment explanation
Indices: 2895418--2895442 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2895408 TATATTTTTA
2895418 CCCCAAAC
1 CCCCAAAC
2895426 CCCCAAAC
1 CCCCAAAC
2895434 CCCCAAAC
1 CCCCAAAC
2895442 C
1 C
2895443 TTTTTACTTT
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:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCCAAAC
Found at i:2895480 original size:29 final size:31
Alignment explanation
Indices: 2895448--2895508 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
2895438 AAACCTTTTT
*
2895448 ACTTTCCCC-CAATACTTTTACTCCC-TCCC
1 ACTTTCCCCTCAAAACTTTTACTCCCTTCCC
2895477 ACTTTCCCCTCAAAACTTTTACTCCCTTCCC
1 ACTTTCCCCTCAAAACTTTTACTCCCTTCCC
2895508 A
1 A
2895509 TCCCACCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.31
30 15 0.52
31 5 0.17
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCTCAAAACTTTTACTCCCTTCCC
Found at i:2895644 original size:19 final size:20
Alignment explanation
Indices: 2895612--2895650 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2895602 CCAACTCTCA
2895612 AAACTTTTTATTTTC-CCCT
1 AAACTTTTTATTTTCACCCT
2895631 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
2895651 TTATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:2896820 original size:24 final size:24
Alignment explanation
Indices: 2896792--2896837 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2896782 ATTATTTTTA
2896792 ATTTTATAT-TTAATAATTTTATCT
1 ATTTTATATATTAA-AATTTTATCT
*
2896816 ATTTTATTTATTAAAATTTTAT
1 ATTTTATATATTAAAATTTTAT
2896838 ATATAGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTATATATTAAAATTTTATCT
Found at i:2900056 original size:16 final size:17
Alignment explanation
Indices: 2900030--2900067 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
2900020 GTTTAATTTG
*
2900030 TTTAGTTGTTTGTTTAT
1 TTTAGTTGTTTATTTAT
2900047 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
2900063 TTTAG
1 TTTAG
2900068 CTATTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:2901523 original size:49 final size:49
Alignment explanation
Indices: 2901461--2901560 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
2901451 TTTCTTTTAC
*
2901461 TAATACTATGTTACTCTTGTTATTACCATTTGCTAAATATGTTTTATTT
1 TAATACTATGTTACTCTTATTATTACCATTTGCTAAATATGTTTTATTT
2901510 TAATACTATGTTACTCTTATTATTACCATTTGCTAAATATGTTTTATTT
1 TAATACTATGTTACTCTTATTATTACCATTTGCTAAATATGTTTTATTT
2901559 TA
1 TA
2901561 TGAGTTATGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (49 bp):
TAATACTATGTTACTCTTATTATTACCATTTGCTAAATATGTTTTATTT
Found at i:2920756 original size:39 final size:39
Alignment explanation
Indices: 2920699--2920776 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
2920689 ACAATTTGAT
2920699 TTCCCTACATCTGAGGAGTCTAACACAGTGAGAAATATA
1 TTCCCTACATCTGAGGAGTCTAACACAGTGAGAAATATA
*
2920738 TTCCCTACATCTGTGGAGTCTAACACAGTGAGAAATATA
1 TTCCCTACATCTGAGGAGTCTAACACAGTGAGAAATATA
2920777 CACTATCTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (39 bp):
TTCCCTACATCTGAGGAGTCTAACACAGTGAGAAATATA
Found at i:2922078 original size:206 final size:198
Alignment explanation
Indices: 2921656--2922115 Score: 620
Period size: 206 Copynumber: 2.3 Consensus size: 198
2921646 TGTCGAGTTG
* * ** * **
2921656 ACTTGTGACACCAACTCAATTAACA-ACATAATTAATACTAGGAATTCTATCACACATGTATGTG
1 ACTTGTGACACCAACTCAATCAA-ATACATTATTAATACTAAAAATCCTATCACACACCTATGTG
* * *
2921720 TGTGGAAACTACAAATTTTGAATAAAAATATGTGTTTAAAATAACATATAATAAATAATGAAACG
65 TGTGGAAACCACAAATTTTGAATAAAAATATATGTTTAAAATAACATAAAATAAATAATGAAACG
2921785 TAAGGTTTGAAACTAATAATAATAACAACACATATGCAATACGTGCAAAATTAAAATGAAAAATA
130 TAAGGTTTGAAACTAATAATAATAACAACACATATGCAATAC-TGCAAAATTAAAATGAAAAATA
2921850 GTTTA
194 GTTTA
2921855 ACTTGTGACACCAACTCAATCAAATACATTATTAATACTAAAAATCCTATCACACACCTAT-TCG
1 ACTTGTGACACCAACTCAATCAAATACATTATTAATACTAAAAATCCTATCACACACCTATGT-G
* * * * *
2921919 TGTTGAAGCCATAAATTTTGAATAAAAATGTATGTTTAAAAATAACATAAAATAAATAATGAGAC
65 TGTGGAAACCACAAATTTTGAATAAAAATATATGTTT-AAAATAACATAAAATAAATAATGAAAC
*
2921984 GTAAGGTTTGAAACTGGTAATAATAATAACAGCACCACATGTGCAATA-TGCATGAAATTAAAAT
129 GTAAGGTTTGAAAC---TAATAATAATAACA--A-CACATATGCAATACTGCA--AAATTAAAAT
2922048 GAAAAATAGTTTA
186 GAAAAATAGTTTA
* * *
2922061 ACTTTTGACATCAACTCAATCAAATACATTATCAATACTAAAAATCCTATCACAC
1 ACTTGTGACACCAACTCAATCAAATACATTATTAATACTAAAAATCCTATCACAC
2922116 GGGTATGCAT
Statistics
Matches: 231, Mismatches: 19, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
198 2 0.01
199 84 0.36
200 39 0.17
203 14 0.06
204 4 0.02
205 1 0.00
206 87 0.38
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (198 bp):
ACTTGTGACACCAACTCAATCAAATACATTATTAATACTAAAAATCCTATCACACACCTATGTGT
GTGGAAACCACAAATTTTGAATAAAAATATATGTTTAAAATAACATAAAATAAATAATGAAACGT
AAGGTTTGAAACTAATAATAATAACAACACATATGCAATACTGCAAAATTAAAATGAAAAATAGT
TTA
Found at i:2922163 original size:206 final size:199
Alignment explanation
Indices: 2921656--2922192 Score: 560
Period size: 206 Copynumber: 2.7 Consensus size: 199
2921646 TGTCGAGTTG
* * * ** * ** **
2921656 ACTTGTGACACCAACTCAATTAACA-ACATAATTAATACTAGGAATTCTATCACACATGTATGTG
1 ACTTGTGACACCAACTCAATCAA-ATACATTATCAATACTAAAAATCCTATCACACACCTATGCA
** * * ** * * *
2921720 TGTGGAAACTACAAATTTTGAATAAAAATATGTGTTT-AAAATAACATATAATAAATAATGAAAC
65 TGTAAAAACCATAAATTTAAAACAAAAATGTGTGTTTAAAAATAACATAAAATAAATAATGAAAC
2921784 GTAAGGTTTGAAACTAATAATAATAACAACACATATGCAATACGTGCAAAATTAAAATGAAAAAT
130 GTAAGGTTTGAAACTAATAATAATAACAACACATATGCAATAC-TGCAAAATTAAAATGAAAAAT
2921849 AGTTTA
194 AGTTTA
* * *
2921855 ACTTGTGACACCAACTCAATCAAATACATTATTAATACTAAAAATCCTATCACACACCTATTCGT
1 ACTTGTGACACCAACTCAATCAAATACATTATCAATACTAAAAATCCTATCACACACCTATGCAT
** * ** * * *
2921920 GTTGAAGCCATAAATTTTGAATAAAAATGTATGTTTAAAAATAACATAAAATAAATAATGAGACG
66 GTAAAAACCATAAATTTAAAACAAAAATGTGTGTTTAAAAATAACATAAAATAAATAATGAAACG
*
2921985 TAAGGTTTGAAACTGGTAATAATAATAACAGCACCACATGTGCAATA-TGCATGAAATTAAAATG
131 TAAGGTTTGAAAC---TAATAATAATAACA--A-CACATATGCAATACTGCA--AAATTAAAATG
2922049 AAAAATAGTTTA
188 AAAAATAGTTTA
* * ***
2922061 ACTTTTGACATCAACTCAATCAAATACATTATCAATACTAAAAATCCTATCACACGGGTATGCAT
1 ACTTGTGACACCAACTCAATCAAATACATTATCAATACTAAAAATCCTATCACACACCTATGCAT
** * * * * *
2922126 GTAAAAACCATGGATTTAAAACACAGATTTGTGTTTAAAACTAACATACAATAAACT-ATGAAAC
66 GTAAAAACCATAAATTTAAAACAAAAATGTGTGTTTAAAAATAACATAAAATAAA-TAATGAAAC
2922190 GTA
130 GTA
2922193 TGTGTTAGGG
Statistics
Matches: 286, Mismatches: 41, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
198 1 0.00
199 84 0.29
200 39 0.14
203 14 0.05
204 4 0.01
205 1 0.00
206 142 0.50
207 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (199 bp):
ACTTGTGACACCAACTCAATCAAATACATTATCAATACTAAAAATCCTATCACACACCTATGCAT
GTAAAAACCATAAATTTAAAACAAAAATGTGTGTTTAAAAATAACATAAAATAAATAATGAAACG
TAAGGTTTGAAACTAATAATAATAACAACACATATGCAATACTGCAAAATTAAAATGAAAAATAG
TTTA
Found at i:2926034 original size:10 final size:10
Alignment explanation
Indices: 2926021--2926054 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2926011 TTATATATAC
2926021 ATATAATATT
1 ATATAATATT
*
2926031 ATATTATATT
1 ATATAATATT
2926041 ATATACATATT
1 ATATA-ATATT
2926052 ATA
1 ATA
2926055 AGGTATCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATAATATT
Found at i:2926187 original size:2 final size:2
Alignment explanation
Indices: 2926180--2926254 Score: 51
Period size: 2 Copynumber: 37.0 Consensus size: 2
2926170 CCAACCATGG
* * * * * *
2926180 AT AT AT AT AC AT AC AT AT AT AT AT CAT TT AC GT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* * * *
2926223 GT AT AT GT AT AT GT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2926255 TCTCCATTTC
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
2 52 0.96
3 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2926229 original size:6 final size:6
Alignment explanation
Indices: 2926218--2926252 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
2926208 TACGTGTATA
*
2926218 TATATG TATATG TATATG TATATA TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
2926253 ATTCTCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:2926235 original size:12 final size:12
Alignment explanation
Indices: 2926214--2926254 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
2926204 CATTTACGTG
2926214 TATATATATGTA
1 TATATATATGTA
*
2926226 TATGTATATGTA
1 TATATATATGTA
2926238 TATATATATGTA
1 TATATATATGTA
2926250 TATAT
1 TATAT
2926255 TCTCCATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (12 bp):
TATATATATGTA
Found at i:2926743 original size:16 final size:17
Alignment explanation
Indices: 2926722--2926754 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2926712 ATTACTCTCC
2926722 ATTTAA-CATTAAATAA
1 ATTTAATCATTAAATAA
*
2926738 ATTTAATTATTAAATAA
1 ATTTAATCATTAAATAA
2926755 TAATTCGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAATCATTAAATAA
Found at i:2932644 original size:27 final size:29
Alignment explanation
Indices: 2932607--2932665 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2932597 TATTAGGCCT
* *
2932607 GTGTAACACAC-C-GGCGTGTGTTAGACC
1 GTGTAACACACACGGGCATGTGCTAGACC
*
2932634 GTGTAAGACACACGGGCATGTGCTAGACC
1 GTGTAACACACACGGGCATGTGCTAGACC
2932663 GTG
1 GTG
2932666 CGGAGGCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 10 0.37
28 1 0.04
29 16 0.59
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (29 bp):
GTGTAACACACACGGGCATGTGCTAGACC
Found at i:2935410 original size:43 final size:44
Alignment explanation
Indices: 2935349--2935470 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 44
2935339 CTTCGGTTTA
* *
2935349 TCCGATGATGCACCGTGTGTCCCAGTATAATTGCTTT-GGCCTG
1 TCCGATGATGCACTGTGTGTGCCAGTATAATTGCTTTCGGCCTG
* * **
2935392 TCCGATGATGTATTGTGTGTGCCAGTATAATTG-TTTCGGTTTG
1 TCCGATGATGCACTGTGTGTGCCAGTATAATTGCTTTCGGCCTG
* *
2935435 TCAGATGATGCACTGTGTGTGCCAGTACAATTGCTT
1 TCCGATGATGCACTGTGTGTGCCAGTATAATTGCTT
2935471 CGATATGTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 3 0.04
43 62 0.93
44 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (44 bp):
TCCGATGATGCACTGTGTGTGCCAGTATAATTGCTTTCGGCCTG
Found at i:2947290 original size:40 final size:39
Alignment explanation
Indices: 2947192--2947414 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
2947182 TCCTCGTTCA
* * ** * *
2947192 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
2947231 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
2947270 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
2947310 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
2947350 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
2947391 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2947415 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:2947348 original size:80 final size:79
Alignment explanation
Indices: 2947190--2947414 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
2947180 GCTCCTCGTT
* * ** * *
2947190 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
2947255 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
2947269 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
2947334 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
2947349 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
2947412 GGA
63 GGA
2947415 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:2947414 original size:120 final size:119
Alignment explanation
Indices: 2947192--2947414 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
2947182 TCCTCGTTCA
* * *
2947192 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
2947257 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
2947311 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
2947375 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
2947415 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:2954695 original size:91 final size:90
Alignment explanation
Indices: 2954470--2954699 Score: 300
Period size: 90 Copynumber: 2.5 Consensus size: 90
2954460 AGGTGACCAT
* * *
2954470 CCGATAACACACTAAATTGCTCATAAGAGCTTTCCAACTGATAACACGCAAAATGCACATAGTGC
1 CCGATAACACGCTAGATTGCTCATAAGAGCTTTCCAACCGATAACACGCAAAATGCACATAGTGC
*
2954535 TAAACCCGTAGGCTAAATATTCCCC
66 TAAACCCATAGGCTAAATATTCCCC
* * * * * *
2954560 CCGACAACACG-TCAGATTGCTCATAAGAGCTTTCCAACCAATAACATGCTAGATGCATATAGTG
1 CCGATAACACGCT-AGATTGCTCATAAGAGCTTTCCAACCGATAACACGCAAAATGCACATAGTG
* **
2954624 CTAAGCTTATAGGCTAAATATTCGCCC
65 CTAAACCCATAGGCTAAATATTC-CCC
* *
2954651 CTGATAACACGCTAGATTGCTCATAAGAGTTTTCCAACCGATAACACGC
1 CCGATAACACGCTAGATTGCTCATAAGAGCTTTCCAACCGATAACACGC
2954700 CAGAATCTTC
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
89 1 0.01
90 72 0.61
91 45 0.38
92 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (90 bp):
CCGATAACACGCTAGATTGCTCATAAGAGCTTTCCAACCGATAACACGCAAAATGCACATAGTGC
TAAACCCATAGGCTAAATATTCCCC
Found at i:2961899 original size:31 final size:33
Alignment explanation
Indices: 2961841--2961905 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 33
2961831 TTTCTTTAAA
2961841 TGTATATAATTAAATCAAAATATAAGTTTTATG
1 TGTATATAATTAAATCAAAATATAAGTTTTATG
*
2961874 TGTATAT-A-TAAATCACAAT-TCAAGTTTTATG
1 TGTATATAATTAAATCAAAATAT-AAGTTTTATG
2961905 T
1 T
2961906 ATACAATGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 1 0.03
31 21 0.70
32 1 0.03
33 7 0.23
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (33 bp):
TGTATATAATTAAATCAAAATATAAGTTTTATG
Found at i:2964360 original size:23 final size:23
Alignment explanation
Indices: 2964311--2964360 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2964301 ACATGTTTGA
* * *
2964311 GAACATGTTCGTTTAATATTCAT
1 GAACATGTTCATTTAATATTAAC
2964334 GAACATGTTCATTTAAT-TTAAAC
1 GAACATGTTCATTTAATATT-AAC
2964357 GAAC
1 GAAC
2964361 GAATATGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (23 bp):
GAACATGTTCATTTAATATTAAC
Found at i:2966038 original size:28 final size:28
Alignment explanation
Indices: 2965957--2966040 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
2965947 CGGATTCTTG
* * * *
2965957 ATTCATAAATATTAGCTTTTGTGAGAAA
1 ATTCATAAATGTCAGCTTGTGTGAGCAA
*
2965985 ATTCCTAAATGTCAGCTTGTGTGAGCAA
1 ATTCATAAATGTCAGCTTGTGTGAGCAA
*
2966013 ATTCATAAATGTCAACTTGTGTGAGCAA
1 ATTCATAAATGTCAGCTTGTGTGAGCAA
2966041 CCCTAATCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (28 bp):
ATTCATAAATGTCAGCTTGTGTGAGCAA
Found at i:2966064 original size:29 final size:28
Alignment explanation
Indices: 2965990--2966066 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
2965980 AGAAAATTCC
* *
2965990 TAAATGTCAGCTTGTGTGAGCAAATTCA
1 TAAATGTCAGCTTGTGTGAGCAAACTAA
* *
2966018 TAAATGTCAACTTGTGTGAGCAACCCTAA
1 TAAATGTCAGCTTGTGTGAGCAA-ACTAA
* *
2966047 TCACTGTCAGCTTGTGTGAG
1 TAAATGTCAGCTTGTGTGAG
2966067 TACTATAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (28 bp):
TAAATGTCAGCTTGTGTGAGCAAACTAA
Found at i:2967943 original size:5 final size:5
Alignment explanation
Indices: 2967933--2967958 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2967923 AACATGGTTT
2967933 TTGAA TTGAA TTGAA TTGAA TTGAA T
1 TTGAA TTGAA TTGAA TTGAA TTGAA T
2967959 AAAGATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
TTGAA
Found at i:2968280 original size:25 final size:25
Alignment explanation
Indices: 2968235--2968332 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 25
2968225 GTCATTAGGG
* *
2968235 TTACCAATTC-CAGCTCTTATGAGC
1 TTACCAATACTCAGCTCGTATGAGC
2968259 TTACCAATACTCAGCTCGTATGAGC
1 TTACCAATACTCAGCTCGTATGAGC
** *
2968284 TTACCGTTATTCAGCTCAG-ATGAGC
1 TTACCAATACTCAGCTC-GTATGAGC
* *
2968309 TTATCATTTA-TC-GCTCGTATGAGC
1 TTACCA-ATACTCAGCTCGTATGAGC
2968333 ATACATGTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.30
25 39 0.62
26 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (25 bp):
TTACCAATACTCAGCTCGTATGAGC
Found at i:2977182 original size:43 final size:43
Alignment explanation
Indices: 2977135--2977310 Score: 176
Period size: 43 Copynumber: 4.1 Consensus size: 43
2977125 CTGTGTAAGA
* *
2977135 CACACAGGGGTGTCTCTTGGCCGTGTGAGACACTCAGCCTGGC
1 CACACAGGGGTGTCTCTTGGCCATGTGAGACACACAGCCTGGC
* ** ** *
2977178 CACACTGGCATGTCTCTTGGCCATGTGAGATGCACGGCCTGGC
1 CACACAGGGGTGTCTCTTGGCCATGTGAGACACACAGCCTGGC
*** * *
2977221 CACAC-GGGCGTGTCTCTTGGATTTGTGAGACTCACGGCCTGGC
1 CACACAGGG-GTGTCTCTTGGCCATGTGAGACACACAGCCTGGC
* * * *
2977264 CAGATA-GGGTGCCTCTTAGCCATGTGAGACACACAGCCTGGC
1 CACACAGGGGTGTCTCTTGGCCATGTGAGACACACAGCCTGGC
2977306 CACAC
1 CACAC
2977311 TGGCGTTAGG
Statistics
Matches: 105, Mismatches: 26, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 32 0.30
43 73 0.70
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.22
Consensus pattern (43 bp):
CACACAGGGGTGTCTCTTGGCCATGTGAGACACACAGCCTGGC
Done.