Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
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: 2464137
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:833706 original size:32 final size:32
Alignment explanation
Indices: 833686--834250 Score: 689
Period size: 32 Copynumber: 17.3 Consensus size: 32
833676 TACATACATA
** **
833686 CATACATGCATACACGCATACATGCATACACG
1 CATACATGCACGCACGCATACATGCACGCACG
** *
833718 CATACATGCATACACGCATACATGCACACACG
1 CATACATGCACGCACGCATACATGCACGCACG
833750 CATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
833782 CATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
833814 CATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
833846 CATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
*
833878 CATACATGCACGCACGCATACATGCACGCACA
1 CATACATGCACGCACGCATACATGCACGCACG
* *
833910 CATACATACATACATGCACGCATACATGCATGCACG
1 CATACATGC--AC--GCACGCATACATGCACGCACG
** **
833946 CACGCATGCACGCACGCACGCATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
** *
833978 CACGCATGCACGCACGCATGCATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
* *
834010 CATGCATGCACGCACGCATGCATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
**
834042 CATACATGCACGCACGCATACATACATGCACGCATA
1 CATACATGCACGCACG----CATACATGCACGCACG
834078 CATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
**
834110 CATACATACATGCACGCATACATACATGCACGCACG
1 ----CATACATGCACGCACGCATACATGCACGCACG
* * * *
834146 CATACATACATGCACGCATACATACATGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
* * * *
834178 CATACATACATGCACGCATACATACATGCACG
1 CATACATGCACGCACGCATACATGCACGCACG
** * ** *
834210 CATACATGCATACATGCATACATGCATACATG
1 CATACATGCACGCACGCATACATGCACGCACG
834242 CATACATGC
1 CATACATGC
834251 TATGCATGCA
Statistics
Matches: 485, Mismatches: 36, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
32 397 0.82
34 4 0.01
36 84 0.17
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.15
Consensus pattern (32 bp):
CATACATGCACGCACGCATACATGCACGCACG
Found at i:833757 original size:48 final size:48
Alignment explanation
Indices: 833686--834250 Score: 689
Period size: 48 Copynumber: 11.5 Consensus size: 48
833676 TACATACATA
** ** *
833686 CATACATGCATACACGCATACATGCATACACGCATACATGCATACACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
* *
833734 CATACATGCACACACGCATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
*
833782 CATACATGCACGCACGCATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
*
833830 CATACATGCACGCACGCATACATGCACGCACGCATACATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
* *
833878 CATACATGCACGCACGCATACATGCACGCACACATACATACATACATGCACG
1 CATACATGCACGCACGCATACATGCACG--CAC--GCATACATGCATGCACG
* ** ** *
833930 CATACATGCATGCACGCACGCATGCACGCACGCACGCATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
** * * *
833978 CACGCATGCACGCACGCATGCATGCACGCACGCATGCATGCACGCACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
* *
834026 CATGCATGCACGCACGCATACATGCACGCACGCATACATACATGCACG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
*
834074 CATACATACATGCACGCACGCATACATGCACGCACGCATACATACATGCACG
1 ----CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
* * *
834126 CATACATACATGCACGCACGCATACATACATGCACGCATACATACATGCACG
1 ----CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
* * * * * *
834178 CATACATACATGCACGCATACATACATGCACGCATACATGCATACATG
1 CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
** *
834226 CATACATGCATACATGCATACATGC
1 CATACATGCACGCACGCATACATGC
834251 TATGCATGCA
Statistics
Matches: 470, Mismatches: 39, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
48 328 0.70
50 6 0.01
52 136 0.29
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.15
Consensus pattern (48 bp):
CATACATGCACGCACGCATACATGCACGCACGCATACATGCATGCACG
Found at i:834379 original size:8 final size:8
Alignment explanation
Indices: 834348--834382 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
834338 TTTTTTTTAA
*
834348 CATACATA
1 CATACATG
834356 CATACATG
1 CATACATG
834364 CATACATG
1 CATACATG
834372 CATACATG
1 CATACATG
834380 CAT
1 CAT
834383 GCGTCTATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (8 bp):
CATACATG
Found at i:834445 original size:125 final size:128
Alignment explanation
Indices: 834218--834476 Score: 470
Period size: 125 Copynumber: 2.0 Consensus size: 128
834208 CGCATACATG
*
834218 CATACATGCATACATGCATACATGCATACATGCTATGCATGCATCTATGCCTTTTACCATTTCAC
1 CATACATACATACATGCATACATGCATACATGCTATGCA-G-ATCTATGCCTTTTACCATTTCAC
834283 AAACAAAACCAAAAGGAAATGATTCCATTTTGTTCATGTTTTTACCCCTTTTTGCTTTTTTTTAA
64 AAACAAAACCAAAAGGAAATGATTCCATTTTGTTCATGTTTTTACCCCTTTTTGCTTTTTTTTAA
834348 CATACATACATACATGCATACATGCATACATGC-ATGC-G-TCTATGCCTTTTACCATTTCACAA
1 CATACATACATACATGCATACATGCATACATGCTATGCAGATCTATGCCTTTTACCATTTCACAA
834410 ACAAAACCAAAAGGAAATGATTCCATTTTGTTCATGTTTTTACCCCTTTTTGCTTTTTTTTAA
66 ACAAAACCAAAAGGAAATGATTCCATTTTGTTCATGTTTTTACCCCTTTTTGCTTTTTTTTAA
834473 CATA
1 CATA
834477 AGAACCCTAA
Statistics
Matches: 128, Mismatches: 1, Indels: 5
0.96 0.01 0.04
Matches are distributed among these distances:
125 91 0.71
127 1 0.01
129 4 0.03
130 32 0.25
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (128 bp):
CATACATACATACATGCATACATGCATACATGCTATGCAGATCTATGCCTTTTACCATTTCACAA
ACAAAACCAAAAGGAAATGATTCCATTTTGTTCATGTTTTTACCCCTTTTTGCTTTTTTTTAA
Found at i:836623 original size:18 final size:18
Alignment explanation
Indices: 836600--836634 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
836590 AAGTATAAGG
836600 ATTTATTTAAAATTAATC
1 ATTTATTTAAAATTAATC
*
836618 ATTTATTTAAATTTAAT
1 ATTTATTTAAAATTAAT
836635 TATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATTTAAAATTAATC
Found at i:836642 original size:17 final size:17
Alignment explanation
Indices: 836604--836664 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
836594 ATAAGGATTT
* *
836604 ATTTAAAATTAATCATTT
1 ATTTAAATTTAATCA-TA
*
836622 ATTTAAATTTAATTATA
1 ATTTAAATTTAATCATA
* **
836639 ATTTTAATAGAATCATA
1 ATTTAAATTTAATCATA
836656 A-TTAAATTT
1 ATTTAAATTT
836665 TTTTTTATTA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
16 5 0.15
17 15 0.45
18 13 0.39
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTTAAATTTAATCATA
Found at i:837437 original size:22 final size:23
Alignment explanation
Indices: 837383--837443 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
837373 ATTAATTATT
*
837383 ATTTTAA-AAATATTATAATTTA
1 ATTTTAATAAATATTATAATTAA
* *
837405 ATTATATTAAA-ATTATAATTAA
1 ATTTTAATAAATATTATAATTAA
837427 ATTTTAATAAATGATTA
1 ATTTTAATAAAT-ATTA
837444 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 24 0.77
23 3 0.10
24 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTTAATAAATATTATAATTAA
Found at i:838479 original size:17 final size:18
Alignment explanation
Indices: 838459--838492 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
838449 TTAAATTATA
838459 ATTAATTTT-AATAAATG
1 ATTAATTTTAAATAAATG
838476 ATTAATTTTAAATAAAT
1 ATTAATTTTAAATAAAT
838493 TTGTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATTTTAAATAAATG
Found at i:839034 original size:3 final size:3
Alignment explanation
Indices: 839021--839053 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
839011 TAATAACGTA
*
839021 AAT AA- AAT AAT AAT AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
839054 TAAATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:839477 original size:25 final size:25
Alignment explanation
Indices: 839456--839587 Score: 160
Period size: 25 Copynumber: 5.4 Consensus size: 25
839446 AATGTGCCAT
839456 GTAGAATATGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
* * *
839481 GTAGAATTTGCACACAAAGTGTCTA
1 GTAGAATATGCACACAAAGTGCCTC
*
839506 GTAGAAT-TGCACACAAAGTGCCCC
1 GTAGAATATGCACACAAAGTGCCTC
* * * *
839530 ATAGAAAATGCACACAAAGTACCTT
1 GTAGAATATGCACACAAAGTGCCTC
* *
839555 ATAGAA-GTGCACACAAAGTGCCTC
1 GTAGAATATGCACACAAAGTGCCTC
839579 GTAGAATAT
1 GTAGAATAT
839588 ACAAGTACTG
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
24 39 0.44
25 50 0.56
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (25 bp):
GTAGAATATGCACACAAAGTGCCTC
Found at i:839525 original size:49 final size:50
Alignment explanation
Indices: 839456--839587 Score: 178
Period size: 49 Copynumber: 2.7 Consensus size: 50
839446 AATGTGCCAT
* **
839456 GTAGAATATGCACACAAAGTGCCTCGTAGAATTTGCACACAAAGTGTC-TA
1 GTAGAAT-TGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTACCTTA
* * *
839506 GTAGAATTGCACACAAAGTGCCCCATAGAAAATGCACACAAAGTACCTTA
1 GTAGAATTGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTACCTTA
*
839556 -TAGAAGTGCACACAAAGTGCCTCGTAGAATAT
1 GTAGAATTGCACACAAAGTGCCTCGTAGAATAT
839588 ACAAGTACTG
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
49 62 0.87
50 9 0.13
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (50 bp):
GTAGAATTGCACACAAAGTGCCTCGTAGAATATGCACACAAAGTACCTTA
Found at i:840854 original size:30 final size:30
Alignment explanation
Indices: 840788--840863 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
840778 CCCAAAATAT
* * *
840788 AACTTTTAAAAATTTATATTTTTAGTTCTTA
1 AACTTTT-AAAATTTATATCTTTAGTCCCTA
840819 AACTTTTACAAATTTATA-CTTTAGTCCCTA
1 AACTTTTA-AAATTTATATCTTTAGTCCCTA
* *
840849 GACTTTCAAAATTTA
1 AACTTTTAAAATTTA
840864 CTTTTCATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 7 0.18
30 16 0.41
31 16 0.41
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (30 bp):
AACTTTTAAAATTTATATCTTTAGTCCCTA
Found at i:842171 original size:3 final size:3
Alignment explanation
Indices: 842150--842212 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
842140 GTCTAAAAAA
842150 TAT T-T TAT TA- TAT TA- TAT TATT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
* * *
842194 TAA TAT TTT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT T
842213 TTTTGTAGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 6 0.12
3 37 0.74
4 7 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:843423 original size:6 final size:6
Alignment explanation
Indices: 843412--843443 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
843402 GTGAAAATAG
843412 TAAATT TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TA
843444 TTTATTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:848484 original size:14 final size:14
Alignment explanation
Indices: 848465--848492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
848455 AATTATATTC
848465 CACTATAAATGAAT
1 CACTATAAATGAAT
848479 CACTATAAATGAAT
1 CACTATAAATGAAT
848493 ATAATATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
CACTATAAATGAAT
Found at i:851343 original size:110 final size:109
Alignment explanation
Indices: 851179--851502 Score: 492
Period size: 110 Copynumber: 3.0 Consensus size: 109
851169 TGGTAGTTGC
*
851179 TCAAATTCACAGCGAAGGG-G-C-GACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAAT
1 TCAACTTCACAGCGAAGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAAT
* * * *
851241 TTTAACTTCATAGCAAAGGACATTAGACTCGTGACAATACAAGA
66 TTTAACTTCATAGCGAAGGATATTAGACTCGAGACAACACAAGA
*
851285 TCAACTTCACAGCGAAGAGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAG-GGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
* *
851350 TTTTAACTTCATAGCGAAGGATATTAGACTCGAGATAACACAAGC
65 TTTTAACTTCATAGCGAAGGATATTAGACTCGAGACAACACAAGA
851395 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
* * * * *
851460 TTTCAACTTCATAGTGAATGATATTAGACTCGAAACGACACAA
65 TTTTAACTTCATAGCGAAGGATATTAGACTCGAGACAACACAA
851503 TTTGCTTGAG
Statistics
Matches: 198, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
106 16 0.08
107 2 0.01
108 1 0.01
109 1 0.01
110 177 0.89
111 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (109 bp):
TCAACTTCACAGCGAAGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAAT
TTTAACTTCATAGCGAAGGATATTAGACTCGAGACAACACAAGA
Found at i:851911 original size:124 final size:122
Alignment explanation
Indices: 851748--852230 Score: 354
Period size: 124 Copynumber: 3.9 Consensus size: 122
851738 ACTCGAAACA
* * * * *
851748 ATACAACTTAC-TTGTATTTCAACTTCACGATGAAGGATATCCAATTCCAGGCTCAACTTCACGA
1 ATACATCTTACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAA
*
851812 CGAAGGGGCCACCCGCAGTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCAGC
66 CGAATGGGCCACCCGCAGTTTCAACTTCACGACGAAGGGAATCGTGCACAC-AGCAGC
* * * **** *
851870 ATACATCTCTATATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGAAGGAGTGTCTG
1 ATACATCT-TACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACT-TC--
* * ** ** * * * *
851935 TCAACAAACT-TTCCAGTTTCAAAGTCAATTTCAACTTCACAACGAA-GGATATCCTCGGA-ACA
62 ACAACGAA-TGGGCCA----C-CCG-CAGTTTCAACTTCACGACGAAGGGA-ATCGT-GCACACA
851997 GC-G-
118 GCAGC
* **
852000 -TA-A-CTTACATTGGATTTCAACTTCACAACGAAGGATATATAATTCAAGGCTCAACTTCACAA
1 ATACATCTTACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAA
* * * * * ** * *
852062 CGAATGGGTCATCCACGGTTTCAACTTCACGATGAAGGGAATTATGCTCACCAGCAAC
66 CGAATGGGCCACCCGCAGTTTCAACTTCACGACGAAGGGAATCGTGCACA-CAGCAGC
* * * * *
852120 ATTCATCTTTAGATTTGATTTTAACTTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACA
1 ATACATC-TTACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACA
* * * *
852185 ACGAATGGGTCATCCGCGGTTTCAACTTCATGACGAAGGGAATCGT
65 ACGAATGGGCCACCCGCAGTTTCAACTTCACGACGAAGGGAATCGT
852231 ACCCACCAGC
Statistics
Matches: 271, Mismatches: 66, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
116 1 0.00
117 21 0.08
118 7 0.03
121 1 0.00
122 9 0.03
123 11 0.04
124 128 0.47
125 4 0.01
126 40 0.15
127 10 0.04
128 1 0.00
129 2 0.01
131 2 0.01
132 7 0.03
133 25 0.09
134 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (122 bp):
ATACATCTTACATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAA
CGAATGGGCCACCCGCAGTTTCAACTTCACGACGAAGGGAATCGTGCACACAGCAGC
Found at i:852238 original size:124 final size:124
Alignment explanation
Indices: 852012--852252 Score: 376
Period size: 124 Copynumber: 1.9 Consensus size: 124
852002 ACTTACATTG
*
852012 GATTTCAACTTCACAACGAAGGATATATAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
1 GATTTCAACTTCACAACGAAGGATATACAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
* * * *
852077 CGGTTTCAACTTCACGATGAAGGGAATTATGCTCACCAGCAACATTCATCTTTAGATTT
66 CGGTTTCAACTTCACGACGAAGGGAATCATACCCACCAGCAACATTCATCTTTAGATTT
* *
852136 GATTTTAACTTCACGAA-GAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCC
1 GATTTCAACTTCAC-AACGAAGGATATACAATTCAAGGCTCAACTTCACAACGAATGGGTCATCC
* * *
852200 GCGGTTTCAACTTCATGACGAAGGGAATCGTACCCACCAGCAACATTCATCTT
65 ACGGTTTCAACTTCACGACGAAGGGAATCATACCCACCAGCAACATTCATCTT
852253 CAAGAACAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 104 0.98
125 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (124 bp):
GATTTCAACTTCACAACGAAGGATATACAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
CGGTTTCAACTTCACGACGAAGGGAATCATACCCACCAGCAACATTCATCTTTAGATTT
Found at i:852351 original size:37 final size:34
Alignment explanation
Indices: 852310--852438 Score: 132
Period size: 36 Copynumber: 3.6 Consensus size: 34
852300 ACAAGGGGTC
* *
852310 GTCTCGCTTGAGACTAATTTACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AATTT-CTCGAAACAAA-TTTT
*
852347 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAATTTCTC--GAAACAAATTTT
* * *
852383 GTCTATCTTGAGACATTTTCCCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAATTT--CTCGAAACAAATTTT
*
852419 GTCTCTCTTGAGACAGTTTC
1 GTCTCTCTTGAGACAATTTC
852439 CCTTGAAGCA
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
34 1 0.01
35 3 0.04
36 54 0.68
37 20 0.25
38 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (34 bp):
GTCTCTCTTGAGACAATTTCTCGAAACAAATTTT
Found at i:852392 original size:36 final size:36
Alignment explanation
Indices: 852335--852450 Score: 187
Period size: 36 Copynumber: 3.2 Consensus size: 36
852325 AATTTACTCA
*
852335 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
852372 AAACAAATTTTGTCTATCTTGAGACATTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
852408 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
852444 AAGCAAA
1 AAACAAA
852451 ATCTTTGAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 66 0.90
37 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:852393 original size:21 final size:20
Alignment explanation
Indices: 852367--852429 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
852357 AGACAGTTTC
852367 TCTTGAAACAAATTTTGTCT
1 TCTTGAAACAAATTTTGTCT
*
852387 ATCTTGAGAC--A-TTT-TC-
1 -TCTTGAAACAAATTTTGTCT
*
852403 CCTTGAAACAAATTTTGTCT
1 TCTTGAAACAAATTTTGTCT
852423 CTCTTGA
1 -TCTTGA
852430 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 7 0.22
17 3 0.09
18 6 0.19
19 3 0.09
21 13 0.41
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (20 bp):
TCTTGAAACAAATTTTGTCT
Found at i:852564 original size:36 final size:36
Alignment explanation
Indices: 852469--852661 Score: 287
Period size: 36 Copynumber: 5.3 Consensus size: 36
852459 ATACGTATTC
** * *
852469 CTTGAAACAAATTCCGTCTCCCTTGAGATAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
* * *
852505 TTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCT
*
852542 CTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
*
852578 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
852614 CTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCT
1 CTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCT
852651 CTTGAAACAAA
1 CTTGAAACAAA
852662 AAAAACCTTT
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
36 78 0.55
37 63 0.45
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
Found at i:852631 original size:73 final size:72
Alignment explanation
Indices: 852468--852661 Score: 289
Period size: 73 Copynumber: 2.7 Consensus size: 72
852458 AATACGTATT
** * * * * *
852468 CCTTGAAACAAATTCCGTCTCCCTTGAGATAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAG
852533 ACAGTTTC
65 ACAGTTTC
* *
852541 TCTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
852606 CAGTTTC
66 CAGTTTC
852613 CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 CCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
852662 AAAAACCTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 36 0.33
73 73 0.67
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (72 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA
CAGTTTC
Found at i:852830 original size:84 final size:85
Alignment explanation
Indices: 852700--852864 Score: 242
Period size: 84 Copynumber: 2.0 Consensus size: 85
852690 ACACCAAACA
* * * * *
852700 TTCGAGTTCGACTACGCTCAGCTGCCAAGGCACATCATTTGCAGCATAGCTCAAGGCTAGAAGGG
1 TTCGAGTTCGACTACACTCAGCTGCAAAGGCACATCATTTGCAGCATAGCTCAAAGCGAGAAGAG
*
852765 TTATCTGCCACCAAAAGCCC
66 CTATCTGCCACCAAAAGCCC
* * *
852785 TTCGAGTTCGATTACACTCAGCT-CAAAGGCACATCATTTGCAGCATAGCTTAAATCGAGAAGAG
1 TTCGAGTTCGACTACACTCAGCTGCAAAGGCACATCATTTGCAGCATAGCTCAAAGCGAGAAGAG
852849 CTATCTGCCACCAAAA
66 CTATCTGCCACCAAAA
852865 AACTGAAGAG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 50 0.70
85 21 0.30
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (85 bp):
TTCGAGTTCGACTACACTCAGCTGCAAAGGCACATCATTTGCAGCATAGCTCAAAGCGAGAAGAG
CTATCTGCCACCAAAAGCCC
Found at i:852876 original size:84 final size:84
Alignment explanation
Indices: 852703--852892 Score: 211
Period size: 84 Copynumber: 2.2 Consensus size: 84
852693 CCAAACATTC
* * * * * * *
852703 GAGTTCGACTACGCTCAGCTGCCAAGGCACATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTA
1 GAGTTCGATTACACTCAGCT-CAAAGGCACATCATTTGCAGCATAGCTCAAAGCGAGAAGAGCTA
** **
852768 TCTGCCACCAAAAGCCCTTC
65 TCTGCCACCAAAAGAACTAA
* *
852788 GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAATCGAGAAGAGCTAT
1 GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAAGCGAGAAGAGCTAT
852853 CTGCCACCAAAA-AACTGAA
66 CTGCCACCAAAAGAACT-AA
* * *
852872 GAGTTTGATTTCATTCAGCTC
1 GAGTTCGATTACACTCAGCTC
852893 GATGACAGCG
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
83 2 0.02
84 68 0.77
85 18 0.20
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (84 bp):
GAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAAGCGAGAAGAGCTAT
CTGCCACCAAAAGAACTAA
Found at i:853133 original size:3 final size:3
Alignment explanation
Indices: 853111--853157 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
853101 AAAAAACATT
853111 TTA TTA -TA TTA -TA TTA -TA TTA TTA TTA TTA TTA TTTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
853153 TTA TT
1 TTA TT
853158 TTTTTTATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.21
3 28 0.72
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:853141 original size:24 final size:23
Alignment explanation
Indices: 853111--853166 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
853101 AAAAAACATT
853111 TTATTATATTATATTATATTATTA
1 TTATTATATT-TATTATATTATTA
* *
853135 TTATTATTATTTATTATTTTATTT
1 TTATTA-TATTTATTATATTATTA
*
853159 TTTTTATA
1 TTATTATA
853167 GGTCCCATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTATATTTATTATATTATTA
Found at i:853149 original size:10 final size:11
Alignment explanation
Indices: 853111--853157 Score: 60
Period size: 10 Copynumber: 4.2 Consensus size: 11
853101 AAAAAACATT
853111 TTATTATATTA
1 TTATTATATTA
853122 -TATTATATTA
1 TTATTATATTA
853132 TTATTATTATTA
1 TTATTA-TATTA
*
853144 TTTATTATTTTA
1 -TTATTATATTA
853156 TT
1 TT
853158 TTTTTTATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 10 0.31
11 7 0.22
12 9 0.28
13 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTATATTA
Found at i:853162 original size:8 final size:8
Alignment explanation
Indices: 853108--853165 Score: 59
Period size: 8 Copynumber: 7.2 Consensus size: 8
853098 TCTAAAAAAC
853108 ATTTTATT
1 ATTTTATT
853116 ATATTATATT
1 AT-TT-TATT
*
853126 ATATTATT
1 ATTTTATT
853134 ATTATTATT
1 ATT-TTATT
853143 A-TTTATT
1 ATTTTATT
853150 ATTTTATT
1 ATTTTATT
853158 -TTTT-TT
1 ATTTTATT
853164 AT
1 AT
853166 AGGTCCCATG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
6 2 0.05
7 11 0.26
8 15 0.35
9 9 0.21
10 6 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
ATTTTATT
Found at i:855710 original size:23 final size:22
Alignment explanation
Indices: 855684--855758 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
855674 AAGTGCCACA
*
855684 TAGACTTGTCCTGAAGGACCGCG
1 TAGAATTGTCC-GAAGGACCGCG
* * * *
855707 TAGAATTTATCCCGAATGACCACA
1 TAGAA-TTGT-CCGAAGGACCGCG
855731 TAGAATTGTTCCGAAGGACCGCG
1 TAGAATTG-TCCGAAGGACCGCG
855754 TAGAA
1 TAGAA
855759 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 21 0.52
24 17 0.43
25 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (22 bp):
TAGAATTGTCCGAAGGACCGCG
Found at i:855727 original size:24 final size:23
Alignment explanation
Indices: 855696--855758 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
855686 GACTTGTCCT
855696 GAAGGACCGCGTAGAATT-TATCCC
1 GAAGGACCGCGTAGAATTGT-T-CC
* * *
855720 GAATGACCACATAGAATTGTTCC
1 GAAGGACCGCGTAGAATTGTTCC
855743 GAAGGACCGCGTAGAA
1 GAAGGACCGCGTAGAA
855759 CCCTCGACTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 15 0.47
24 16 0.50
25 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (23 bp):
GAAGGACCGCGTAGAATTGTTCC
Found at i:855730 original size:47 final size:47
Alignment explanation
Indices: 855655--855758 Score: 142
Period size: 47 Copynumber: 2.2 Consensus size: 47
855645 GTCGAAACTG
* *
855655 CCGCTTAGAATTTACACCGAAGTGCCACATAGACTTG-TCCTGAAGGA
1 CCGCGTAGAATTTACACCGAAGTGCCACATAGAATTGTTCC-GAAGGA
855702 CCGCGTAGAATTTATC-CCGAA-TGACCACATAGAATTGTTCCGAAGGA
1 CCGCGTAGAATTTA-CACCGAAGTG-CCACATAGAATTGTTCCGAAGGA
855749 CCGCGTAGAA
1 CCGCGTAGAA
855759 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
46 2 0.04
47 46 0.88
48 4 0.08
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (47 bp):
CCGCGTAGAATTTACACCGAAGTGCCACATAGAATTGTTCCGAAGGA
Found at i:857218 original size:28 final size:28
Alignment explanation
Indices: 857161--857216 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
857151 CCTAGACAAA
* *
857161 AATTTTCAAAATCAATCCTTAAATTTTT
1 AATTTTCAAAATCAAACCCTAAATTTTT
*
857189 AATTTTCAAAATTAAACCACTAAATTTT
1 AATTTTCAAAATCAAACC-CTAAATTTT
857217 AAATCTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (28 bp):
AATTTTCAAAATCAAACCCTAAATTTTT
Found at i:859448 original size:15 final size:15
Alignment explanation
Indices: 859428--859466 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
859418 GATTCAGAGA
859428 CTCTGAATGAGTTGG
1 CTCTGAATGAGTTGG
*
859443 CTCTGAATGATTTGG
1 CTCTGAATGAGTTGG
*
859458 TTCTGAATG
1 CTCTGAATG
859467 TGACATGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (15 bp):
CTCTGAATGAGTTGG
Found at i:859536 original size:23 final size:23
Alignment explanation
Indices: 859506--859550 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
859496 CAAAATGTAC
*
859506 TGTTTTGCTGAATCATTCAGCAT
1 TGTTTTGCTGAATCAGTCAGCAT
859529 TGTTTTGCTGAATCAGTCAGCA
1 TGTTTTGCTGAATCAGTCAGCA
859551 CTGAATCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (23 bp):
TGTTTTGCTGAATCAGTCAGCAT
Found at i:862183 original size:2 final size:2
Alignment explanation
Indices: 862176--862215 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
862166 AGAGTACAAA
*
862176 CT CT CT CT CT CG CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
862216 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:862748 original size:26 final size:27
Alignment explanation
Indices: 862719--862772 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
862709 ATTGAGTTCG
* *
862719 ATTTGATTTAAAAAGTTTA-AAATTTA
1 ATTTAATTTAAAAAATTTACAAATTTA
*
862745 ATTTAATTTAAAAAATTTACGAATTTA
1 ATTTAATTTAAAAAATTTACAAATTTA
862772 A
1 A
862773 AATTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (27 bp):
ATTTAATTTAAAAAATTTACAAATTTA
Found at i:864445 original size:181 final size:178
Alignment explanation
Indices: 864128--864563 Score: 635
Period size: 181 Copynumber: 2.4 Consensus size: 178
864118 TTTTACTACT
* *
864128 GGTTTTGTTATTTCGAGACCGATTTGTCACA-TTTTACCTGTTATATTGTTATGGATCGATACAT
1 GGTTTTGTCATTTCGAGACCGATTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
** * * * * *
864192 TTTTATAAAACATCGACATTTTATTAGCGCTATAATTTTTTTTTCTTTAAATTTTAAAAGTGTCG
66 TTTTATAAAGTATCGACATCTTATTAGCGCTATAATTCTTCTCTCTTTAAATTCTAAAAGTGTCG
* * *
864257 ATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACC
131 ATACTTATAATAAAATATCGACACTATC-ACATATCCGGTAG--CTTTACC
*
864308 GGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
1 GGTTTTGTCATTTCGAGACC-GATTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
864373 TTTTTATAAAGTATCGACA-CTTATTAGCGCTATAACTTCTTCTCT-TTTAAATTCTAAAAGTGT
65 TTTTTATAAAGTATCGACATCTTATTAGCGCTATAA-TTCTTCTCTCTTTAAATTCTAAAAGTGT
864436 CGATACTTATAATAAAATATCGACACTATCACATATCCGGTAGCTTTACC
129 CGATACTTATAATAAAATATCGACACTATCACATATCCGGTAGCTTTACC
* ** * * *
864486 TGTTTTGTCATTTATAAACCGATTTGTCATTTTTTTACCTGTTATATTGTGATGGATCGATACAT
1 GGTTTTGTCATTTCGAGACCGATTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
864551 TTTTATAAAGTAT
66 TTTTATAAAGTAT
864564 TGAAACTTTC
Statistics
Matches: 233, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
177 55 0.24
178 23 0.10
180 31 0.13
181 69 0.30
182 55 0.24
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (178 bp):
GGTTTTGTCATTTCGAGACCGATTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
TTTTATAAAGTATCGACATCTTATTAGCGCTATAATTCTTCTCTCTTTAAATTCTAAAAGTGTCG
ATACTTATAATAAAATATCGACACTATCACATATCCGGTAGCTTTACC
Found at i:864636 original size:110 final size:109
Alignment explanation
Indices: 864447--864892 Score: 617
Period size: 110 Copynumber: 4.1 Consensus size: 109
864437 GATACTTATA
* * * * *
864447 ATAAAATATCGACACTATC-ACATATCCGGTA--GCTTTACCTGTTTTGTCATTTATAAACC-GA
1 ATAAAGTATCGACACTTTCAATATATCC-GTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
864508 TTTGTCATTTTTTTACCTGTTATATTGTGATGGATCGATACATTTTT
65 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACA-TTTT
* *
864555 ATAAAGTATTGAAACTTTCAATATATCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
1 ATAAAGTATCGACACTTTCAATATATCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
864620 TTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTT
66 TTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTT
* *
864664 -TAAAGTATCGACACTTTC-A-ATATCCGGTAGCGTTTTACATG-TTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCC-GTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
864725 TTTGTCTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTT
65 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTT
* *
864770 ATAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATA-TCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
864835 TTTGTCGTTTTTTTACC-G-TATATTGTTATGGATCAATA-TTTTT
65 TTTGTC-ATTTTTTACCTGTTATATTGTTATGGATCGATACATTTT
864878 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
864893 AAACCGACAA
Statistics
Matches: 308, Mismatches: 19, Indels: 22
0.88 0.05 0.06
Matches are distributed among these distances:
106 70 0.23
107 32 0.10
108 54 0.18
109 46 0.15
110 88 0.29
111 18 0.06
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (109 bp):
ATAAAGTATCGACACTTTCAATATATCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTT
TTGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTT
Found at i:864887 original size:215 final size:217
Alignment explanation
Indices: 864447--864892 Score: 674
Period size: 216 Copynumber: 2.1 Consensus size: 217
864437 GATACTTATA
* *
864447 ATAAAATATCGACACTATCACATATCCGGTAGCTTTACCTGTTTTGTCATTTATAAACCGATTTG
1 ATAAAGTATCGACACTATCACATATCCGGTAGCTTTACATGTTTTGTCATTTATAAACCGATTTG
*
864512 TCATTTTTTTACCTGTTATATTGTGATGGATCGATACATTTTTATAAAGTATTGAAACTTTCAAT
66 TCATTTTTTTACCTGTTATATTGTGATGGATCGATACATTTTTATAAAGTATCGAAACTTTCAAT
864577 ATATCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATA
131 ATATCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATA
*
864642 TTGTTATGGATCGATACATTTT
196 TTGTTATGGATCAATACATTTT
* * *
864664 -TAAAGTATCGACACTTTCA-ATATCCGGTAGCGTTTTACATG-TTTGTCATTTATAGACCGGTT
1 ATAAAGTATCGACACTATCACATATCCGGTAGC--TTTACATGTTTTGTCATTTATAAACC-GAT
* *
864726 TTGTC-TTTTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTTTC
63 TTGTCATTTTTTTACCTGTTATATTGTGATGGATCGATACATTTTTATAAAGTATCGAAACTTTC
* * *
864789 AATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGTTTTGTCGTTTTTTTACC-G
128 AATATA-TCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC-ATTTTTTACCTG
*
864853 -TATATTGTTATGGATCAATA-TTTTT
191 TTATATTGTTATGGATCAATACATTTT
864878 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
864893 AAACCGACAA
Statistics
Matches: 210, Mismatches: 13, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
214 4 0.02
215 72 0.34
216 111 0.53
217 23 0.11
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (217 bp):
ATAAAGTATCGACACTATCACATATCCGGTAGCTTTACATGTTTTGTCATTTATAAACCGATTTG
TCATTTTTTTACCTGTTATATTGTGATGGATCGATACATTTTTATAAAGTATCGAAACTTTCAAT
ATATCCGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATA
TTGTTATGGATCAATACATTTT
Found at i:866554 original size:19 final size:19
Alignment explanation
Indices: 866530--866573 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
866520 GCATACCCTA
866530 GGTGCACTAAGAGTGCATC
1 GGTGCACTAAGAGTGCATC
866549 GGTGCACTAAGAGTGCATC
1 GGTGCACTAAGAGTGCATC
*
866568 GATGCA
1 GGTGCA
866574 TAAAATGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.20
Consensus pattern (19 bp):
GGTGCACTAAGAGTGCATC
Found at i:866721 original size:91 final size:91
Alignment explanation
Indices: 866559--866724 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
866549 GGTGCACTAA
**
866559 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTC
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGTC
*
866624 TTGTGCATCGATGCATCAAATGCACT
66 TGGTGCATCGATGCATCAAATGCACT
* * *
866650 GAGTGCATCGATGCATAAAATGCATTCTATG-TTTGAAAAATTAATTG-GTGTATCGATGCATGG
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAA--AACTGAGTGCATCGATGCATGG
866713 AT-TGGTGCATCG
64 -TCTGGTGCATCG
866725 GTGTATCACT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
90 9 0.14
91 54 0.82
92 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (91 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATGGTC
TGGTGCATCGATGCATCAAATGCACT
Found at i:867091 original size:189 final size:191
Alignment explanation
Indices: 866771--867151 Score: 748
Period size: 189 Copynumber: 2.0 Consensus size: 191
866761 TGGTTCAAAT
866771 ATTTTGTGAAAATTGTTTCAAAAATATATTAAGTATAAAACACAATTTTACACATTTAGTAAGGT
1 ATTTTGTGAAAATTGTTTCAAAAATATATTAAGTATAAAACACAATTTTACACATTTAGTAAGGT
866836 TTGAATTTGAACTTGAAAGACTTTGAGTAATAATTTGATATTCAATTAATTAAATTGAATATACT
66 TTGAATTTGAACTTGAAAGACTTTGAGTAATAATTTGATATTCAATTAATTAAATTGAATATACT
866901 TAGAAAATATTTTGTAAAATCTTAAAATTTATTTAAACTTAATTTG-T-TATCGAAACATC
131 TAGAAAATATTTTGTAAAATCTTAAAATTTATTTAAACTTAATTTGTTATATCGAAACATC
866960 ATTTTGTGAAAATTGTTTCAAAAATATATTAAGTATAAAACACAATTTTACACATTTAGTAAGGT
1 ATTTTGTGAAAATTGTTTCAAAAATATATTAAGTATAAAACACAATTTTACACATTTAGTAAGGT
867025 TTGAATTTGAACTTGAAAGACTTTGAGTAATAATTTGATATTCAATTAATTAAATTGAATATACT
66 TTGAATTTGAACTTGAAAGACTTTGAGTAATAATTTGATATTCAATTAATTAAATTGAATATACT
867090 TAGAAAATATTTTGTAAAATCTTAAAATTTATTTAAACTTAATTTGTTATATCGAAACATC
131 TAGAAAATATTTTGTAAAATCTTAAAATTTATTTAAACTTAATTTGTTATATCGAAACATC
867151 A
1 A
867152 AAATGTTTTT
Statistics
Matches: 190, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
189 176 0.93
190 1 0.01
191 13 0.07
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (191 bp):
ATTTTGTGAAAATTGTTTCAAAAATATATTAAGTATAAAACACAATTTTACACATTTAGTAAGGT
TTGAATTTGAACTTGAAAGACTTTGAGTAATAATTTGATATTCAATTAATTAAATTGAATATACT
TAGAAAATATTTTGTAAAATCTTAAAATTTATTTAAACTTAATTTGTTATATCGAAACATC
Found at i:869036 original size:21 final size:21
Alignment explanation
Indices: 868980--869036 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
868970 GGCATGTAAA
* *
868980 ATATCTCGAAGGATCTCATAT
1 ATATCCCGAAGGACCTCATAT
* * * * *
869001 ATGTTCTGAAAGACCTCGTAT
1 ATATCCCGAAGGACCTCATAT
869022 ATATCCCGAAGGACC
1 ATATCCCGAAGGACC
869037 ACTCCTTAAG
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (21 bp):
ATATCCCGAAGGACCTCATAT
Found at i:869298 original size:33 final size:33
Alignment explanation
Indices: 869256--869320 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
869246 GTAACTTATG
*
869256 TAACATTCTTGTATGATCTAATAGATCCTTGTA
1 TAACATTCTTGTATGATCTAATAGATCATTGTA
*
869289 TAACATTCTTGTATGATCTCATAGATCATTGT
1 TAACATTCTTGTATGATCTAATAGATCATTGT
869321 CATATAACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (33 bp):
TAACATTCTTGTATGATCTAATAGATCATTGTA
Found at i:869644 original size:14 final size:14
Alignment explanation
Indices: 869625--869659 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
869615 TGTGCATGTA
869625 ATCATATAGATCAT
1 ATCATATAGATCAT
* *
869639 ATCATATAGCTTAT
1 ATCATATAGATCAT
869653 ATCATAT
1 ATCATAT
869660 TTCATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (14 bp):
ATCATATAGATCAT
Found at i:870255 original size:17 final size:18
Alignment explanation
Indices: 870221--870258 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
870211 ACCCAAAAAA
*
870221 GTCAACGGCCGGTCAACG
1 GTCAACGGCCGATCAACG
870239 GTCAACGG-CGATCAACG
1 GTCAACGGCCGATCAACG
870256 GTC
1 GTC
870259 CAGGCGGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.13
Consensus pattern (18 bp):
GTCAACGGCCGATCAACG
Found at i:871659 original size:21 final size:21
Alignment explanation
Indices: 871635--871687 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
871625 GTACATTCCG
871635 CAACCATTTCAGATGGCACAA
1 CAACCATTTCAGATGGCACAA
* *
871656 CAACCATATCAGATGGCACCA
1 CAACCATTTCAGATGGCACAA
871677 CAACCATTTCA
1 CAACCATTTCA
871688 TATATCACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (21 bp):
CAACCATTTCAGATGGCACAA
Found at i:877487 original size:25 final size:25
Alignment explanation
Indices: 877454--877505 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
877444 ATAGAGTGAG
877454 CTTTAGAAA-TCTCAGTAATACAGAA
1 CTTTAGAAAGT-TCAGTAATACAGAA
*
877479 CTTTGGAAAGTTCAGTAATACAGAA
1 CTTTAGAAAGTTCAGTAATACAGAA
877504 CT
1 CT
877506 ATCAGATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (25 bp):
CTTTAGAAAGTTCAGTAATACAGAA
Found at i:877974 original size:48 final size:48
Alignment explanation
Indices: 877919--878010 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
877909 ATACGGAGAT
* *
877919 ATCAGAAATCAAAATAAAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGATAAGATATCAGAACAGAATCCAG
* * * **
877967 ATCAGAAATCAGAACAGAATTCAGGTAATCTATCAGAACAGAAT
1 ATCAGAAATCAAAACAAAATTCAGATAAGATATCAGAACAGAAT
878011 TCAAGTCGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGATAAGATATCAGAACAGAATCCAG
Found at i:877983 original size:24 final size:24
Alignment explanation
Indices: 877919--877986 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
877909 ATACGGAGAT
* * * *
877919 ATCAGAAATCAAAATAAAATTCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
877943 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAG
877967 ATCAGAAATCAGAACAGAAT
1 ATCAGAAATCAGAACAGAAT
877987 TCAGGTAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATCCAG
Found at i:877990 original size:12 final size:12
Alignment explanation
Indices: 877936--877990 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
877926 ATCAAAATAA
*
877936 AATTCAGATCAG
1 AATTCAGAACAG
877948 -ATATCAGAACAG
1 AAT-TCAGAACAG
* *
877960 AATCCAGATCAG
1 AATTCAGAACAG
*
877972 AAATCAGAACAG
1 AATTCAGAACAG
877984 AATTCAG
1 AATTCAG
877991 GTAATCTATC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.18
Consensus pattern (12 bp):
AATTCAGAACAG
Found at i:878025 original size:24 final size:24
Alignment explanation
Indices: 877920--878027 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
877910 TACGGAGATA
* * *
877920 TCAGAAATCAAAATAAAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* *
877943 ATCAGATATCAGAACAGAA-TCCAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
877967 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
* ***
877992 TAATCTATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
878016 TCGGAAATCAGA
1 TCAGAAATCAGA
878028 TAAAATATTT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 2 0.03
24 60 0.92
25 3 0.05
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:881856 original size:23 final size:23
Alignment explanation
Indices: 881813--881856 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
881803 CCAAATAACC
* *
881813 AAAAACATGACATAGAGGCAGAG
1 AAAAACATGACATAAAAGCAGAG
*
881836 AAAAACATGTCATAAAAGCAG
1 AAAAACATGACATAAAAGCAG
881857 GATACGTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.14, G:0.20, T:0.11
Consensus pattern (23 bp):
AAAAACATGACATAAAAGCAGAG
Found at i:884214 original size:3 final size:3
Alignment explanation
Indices: 884206--884236 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
884196 CCAATTAGTT
*
884206 GAA GAA GAA GAA GAA GAA GAA GAA GCA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
884237 CACTTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.03, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:886084 original size:23 final size:24
Alignment explanation
Indices: 886034--886089 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
886024 TGTTATTATT
*
886034 TATTTTAATT-TTATTGTATACTA
1 TATTTTAATTACTATTGTATACTA
*
886057 T-TTTTAATTACTATTGTA-ATTA
1 TATTTTAATTACTATTGTATACTA
*
886079 TATTTTTATTA
1 TATTTTAATTA
886090 AAAATGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTTTAATTACTATTGTATACTA
Found at i:896712 original size:31 final size:31
Alignment explanation
Indices: 896654--896712 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
896644 AAATTATTAA
** * *
896654 AAAATAATCATTAATTTTATTGTATTTTCTC
1 AAAATAATCATTAAAATTATCGAATTTTCTC
896685 AAAATAATCATTAAAATTATCGAATTTT
1 AAAATAATCATTAAAATTATCGAATTTT
896713 TACAATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (31 bp):
AAAATAATCATTAAAATTATCGAATTTTCTC
Found at i:901992 original size:18 final size:18
Alignment explanation
Indices: 901966--902000 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
901956 TCGAAAGAAC
*
901966 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
901984 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
902001 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:906728 original size:19 final size:20
Alignment explanation
Indices: 906700--906745 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
906690 TATATGATTT
906700 TCCAAATT-CGTTGCGATAG
1 TCCAAATTCCGTTGCGATAG
*
906719 TCCAAGTTCGCGTTGCGATAG
1 TCCAAATTC-CGTTGCGATAG
906740 TCCAAA
1 TCCAAA
906746 ATCGCAACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
21 16 0.70
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (20 bp):
TCCAAATTCCGTTGCGATAG
Found at i:906750 original size:21 final size:21
Alignment explanation
Indices: 906708--906750 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
906698 TTTCCAAATT
**
906708 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAAATCG
906729 CGTTGCGATAGTCCAAAATCG
1 CGTTGCGATAGTCCAAAATCG
906750 C
1 C
906751 AACGACTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAAATCG
Found at i:906844 original size:6 final size:6
Alignment explanation
Indices: 906833--906900 Score: 104
Period size: 6 Copynumber: 11.7 Consensus size: 6
906823 AGACACGTAT
*
906833 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCCC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
*
906881 GACCCC GACC-C GACC-C GACC
1 GACCAC GACCAC GACCAC GACC
906901 CGAGACGGCG
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
5 10 0.16
6 51 0.84
ACGTcount: A:0.28, C:0.54, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:907696 original size:21 final size:21
Alignment explanation
Indices: 907670--907820 Score: 111
Period size: 21 Copynumber: 7.3 Consensus size: 21
907660 ATTTTGGACT
907670 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
907691 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
907712 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
907733 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
907754 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
907775 ATCGCAACGCGAACTTGG-AT-T
1 ATCGCAA--CGAATTTGGAATAA
907796 ATCGCAACGAATTT-GAA-AA
1 ATCGCAACGAATTTGGAATAA
907815 ATCGCA
1 ATCGCA
907821 TTGCGATAGT
Statistics
Matches: 100, Mismatches: 18, Indels: 26
0.69 0.12 0.18
Matches are distributed among these distances:
18 1 0.01
19 30 0.30
21 42 0.42
22 2 0.02
23 25 0.25
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:907725 original size:42 final size:42
Alignment explanation
Indices: 907666--907820 Score: 269
Period size: 42 Copynumber: 3.7 Consensus size: 42
907656 TGCGATTTTG
907666 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
907708 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
907750 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
907792 GATTATCGCAACGAATTT-GAA-AAATCGCA
1 GACTATCGCAACGAATTTGGAATAAATCGCA
907821 TTGCGATAGT
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 8 0.07
41 3 0.03
42 98 0.90
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:907845 original size:21 final size:21
Alignment explanation
Indices: 907816--907865 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
907806 ATTTGAAAAA
*
907816 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
907837 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
907858 TCGCGTTG
1 TCGCGTTG
907866 TGAATCTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:909097 original size:130 final size:130
Alignment explanation
Indices: 908961--909204 Score: 416
Period size: 130 Copynumber: 1.9 Consensus size: 130
908951 TTATATAATC
* *
908961 ATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAG
1 ATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAA
*
909026 CACATGATCATGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCTATCA
66 CACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCA
*
909091 ATTTGGTTCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAA
1 ATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAA
* * * *
909156 CACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 CACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
909205 GAAGAAAATT
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 106 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (130 bp):
ATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAA
CACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCA
Found at i:909683 original size:16 final size:18
Alignment explanation
Indices: 909662--909695 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
909652 ATTTCTTATT
909662 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
909678 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
909696 TAAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:909844 original size:21 final size:21
Alignment explanation
Indices: 909818--909860 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
909808 TATTACCTTA
909818 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
909839 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
909860 A
1 A
909861 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:909878 original size:35 final size:35
Alignment explanation
Indices: 909829--909914 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
909819 ATTGAAGTAT
** * *
909829 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
909864 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
909899 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
909915 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:910529 original size:34 final size:34
Alignment explanation
Indices: 910466--910577 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
910456 AAAACAATTC
*
910466 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
910501 TCAATTTCATTCT-AACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
910535 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
910570 TCAATTTC
1 TCAATTTC
910578 TGTCTTTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
33 1 0.01
34 30 0.43
35 33 0.48
36 5 0.07
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:911648 original size:35 final size:34
Alignment explanation
Indices: 911600--911711 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
911590 ATTTCTCCTT
*
911600 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* *
911635 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* * *
911670 AAATTGAATTACTTTGAAATTTGGGATTTATAATG
1 AAATTGAATTATTTTG-AATTTGGGGTTTAGAATG
911705 AAATTGA
1 AAATTGA
911712 GGAATGTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 66 0.99
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGAATTTGGGGTTTAGAATG
Found at i:913895 original size:20 final size:20
Alignment explanation
Indices: 913857--913907 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
913847 AAAATATTTT
**
913857 TATGAATAGTA-TTATACTG
1 TATGAATAGTACCGATACTG
913876 TATGAATAGTACCGATACTG
1 TATGAATAGTACCGATACTG
*
913896 TATGAACAGTAC
1 TATGAATAGTAC
913908 TGATGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:913954 original size:20 final size:20
Alignment explanation
Indices: 913929--913976 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
913919 AATTTCAGAA
*
913929 TGCTACAGGGGTATCGATAC
1 TGCTACAGGGGTACCGATAC
913949 TGCTACAGGGGTACCGATAC
1 TGCTACAGGGGTACCGATAC
913969 TGCTACAG
1 TGCTACAG
913977 CAATTTCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (20 bp):
TGCTACAGGGGTACCGATAC
Found at i:916987 original size:34 final size:34
Alignment explanation
Indices: 916908--916977 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
916898 ATAATATAAT
*
916908 TTCACATCTCTTGAAATTTTATAATTCTAGACCA
1 TTCACATTTCTTGAAATTTTATAATTCTAGACCA
916942 TTCACATTTCTTGAAATTTTATAATTCTAGACCA
1 TTCACATTTCTTGAAATTTTATAATTCTAGACCA
916976 TT
1 TT
916978 GAGTTTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (34 bp):
TTCACATTTCTTGAAATTTTATAATTCTAGACCA
Found at i:918178 original size:12 final size:12
Alignment explanation
Indices: 918161--918207 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
918151 ACAGAGATAT
918161 CAGAAATCAGAG
1 CAGAAATCAGAG
* *
918173 CAGAAATCATAA
1 CAGAAATCAGAG
*
918185 CAGAATTCAGAG
1 CAGAAATCAGAG
918197 CAGAAATCAGA
1 CAGAAATCAGA
918208 TAAAATATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.13
Consensus pattern (12 bp):
CAGAAATCAGAG
Found at i:919443 original size:21 final size:21
Alignment explanation
Indices: 919419--919459 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
919409 CCTTCTTAAT
919419 TTTTTTATTTAATA-TATTATG
1 TTTTTT-TTTAATATTATTATG
*
919440 TTTTTTTTTATTATTATTAT
1 TTTTTTTTTAATATTATTAT
919460 TTCATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTTTTTAATATTATTATG
Found at i:919753 original size:17 final size:17
Alignment explanation
Indices: 919727--919760 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
919717 TTTCTTTGTT
919727 TTTATATATA-TTTTTA
1 TTTATATATACTTTTTA
919743 TTTATTATATACTTTTTA
1 TTTA-TATATACTTTTTA
919761 CCCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATATACTTTTTA
Found at i:919799 original size:18 final size:17
Alignment explanation
Indices: 919768--919810 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
919758 TTACCCTTTT
*
919768 TATATTTTCTTT-CTT-
1 TATATTTTATTTCCTTC
919783 TAT-TTTTATTTCCTTC
1 TATATTTTATTTCCTTC
919799 TATATTTTATTT
1 TATATTTTATTT
919811 TGTTATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 3 0.12
17 8 0.33
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (17 bp):
TATATTTTATTTCCTTC
Found at i:919874 original size:3 final size:3
Alignment explanation
Indices: 919860--919905 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
919850 GTCATGTATA
*
919860 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
919906 TTCTTCATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:919949 original size:45 final size:45
Alignment explanation
Indices: 919900--919986 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
919890 TATTATTATT
* **
919900 ATTATTTTCTTCATTTTATTTATTTTTAT-CTTTGCTTTATTTCTC
1 ATTATTTTCTTCATTTCATGCATTTTTATACTTT-CTTTATTTCTC
* *
919945 ATTATTTTCTTTATTTCATGCATTTTTTTACTTTCTTTATTT
1 ATTATTTTCTTCATTTCATGCATTTTTATACTTTCTTTATTT
919987 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 32 0.89
46 4 0.11
ACGTcount: A:0.16, C:0.13, G:0.02, T:0.69
Consensus pattern (45 bp):
ATTATTTTCTTCATTTCATGCATTTTTATACTTTCTTTATTTCTC
Found at i:919960 original size:9 final size:9
Alignment explanation
Indices: 919901--919987 Score: 54
Period size: 9 Copynumber: 9.8 Consensus size: 9
919891 ATTATTATTA
919901 TTATTTTCT
1 TTATTTTCT
* *
919910 TCATTTTAT
1 TTATTTTCT
919919 TTATTTT-T
1 TTATTTTCT
* * *
919927 ATCTTTGCT
1 TTATTTTCT
*
919936 TTATTTCTCA
1 TTATTT-TCT
919946 TTATTTTCT
1 TTATTTTCT
919955 TTA-TTTCAT
1 TTATTTTC-T
**
919964 GCATTTT-T
1 TTATTTTCT
*
919972 TTACTTTCT
1 TTATTTTCT
919981 TTATTTT
1 TTATTTT
919988 TAATTTTTTA
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
8 14 0.25
9 32 0.57
10 10 0.18
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (9 bp):
TTATTTTCT
Found at i:919968 original size:21 final size:20
Alignment explanation
Indices: 919934--919978 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
919924 TTTATCTTTG
919934 CTTTATTTCTCATTATTTT-
1 CTTTATTTCTCATTATTTTA
*
919953 CTTTATTTCATGCATTTTTTTA
1 CTTTATTTC-T-CATTATTTTA
919975 CTTT
1 CTTT
919979 CTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 1 0.05
21 8 0.36
22 4 0.18
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.67
Consensus pattern (20 bp):
CTTTATTTCTCATTATTTTA
Found at i:921654 original size:23 final size:23
Alignment explanation
Indices: 921643--921711 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
921633 GTGTTTGTGT
921643 TGTTCGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
**
921666 TGTTCGTTTATGTTCGTTCGTTCG
1 TGTTCGTTTATGTTCGTTTATT-G
* *
921690 TTTTCTTTTATGTTCGTTTATT
1 TGTTCGTTTATGTTCGTTTATT
921712 ATTTAAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.07, C:0.12, G:0.19, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:921656 original size:13 final size:12
Alignment explanation
Indices: 921642--921687 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
921632 TGTGTTTGTG
921642 TTGTTCGTTTA-
1 TTGTTCGTTTAT
921653 -TGTTCGTTTAT
1 TTGTTCGTTTAT
921664 TGTGTTCGTTTAT
1 T-TGTTCGTTTAT
921677 GTTCGTTCGTT
1 -TT-GTTCGTT
921688 CGTTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.33
13 12 0.40
14 8 0.27
ACGTcount: A:0.07, C:0.11, G:0.22, T:0.61
Consensus pattern (12 bp):
TTGTTCGTTTAT
Found at i:921658 original size:10 final size:10
Alignment explanation
Indices: 921643--921683 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
921633 GTGTTTGTGT
921643 TGTTCGTTTA
1 TGTTCGTTTA
921653 TGTTCGTTTA
1 TGTTCGTTTA
921663 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
921676 TGTTCGTT
1 TGTTCGTT
921684 CGTTCGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 18 0.64
13 10 0.36
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:924449 original size:95 final size:95
Alignment explanation
Indices: 924277--924530 Score: 284
Period size: 95 Copynumber: 2.6 Consensus size: 95
924267 TAATTTTATA
* *
924277 TATATATACAATAAAGCTTGAGTTGTCCCTATAAAGCATTTGGTTAAACGCCCCAGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGGA
*
924342 TAAGAGTTAGCTAGA-CTGATAAAGGTG-AT
66 GAAGAGTTAGCTA-ACCTGATAAAGGTGAAT
* * * *
924371 TATACTATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACGTCTCGGCTTTATGG
1 TATA-TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGG
*
924436 AGAATA-TTCAGCTAACCTGATAAAGGTGATAATT
65 AGAAGAGTT-AGCTAACCTGATAAAGGTG--AA-T
* * * * *
924470 ATATATATACAATAATA--TTAAGTTGTCCCTCTAGAGAAATTGGTTAAACACTCCAGCTTTA
1 -TATATATACAATAA-AGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTA
924531 GGGATTCAGC
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
94 7 0.05
95 75 0.56
98 36 0.27
99 11 0.08
100 5 0.04
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (95 bp):
TATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGGA
GAAGAGTTAGCTAACCTGATAAAGGTGAAT
Found at i:925738 original size:21 final size:21
Alignment explanation
Indices: 925713--925777 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
925703 TGAGATAGTT
925713 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
925734 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
925751 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
925770 TCTCTTGA
1 TCTCTTGA
925778 GACAGCTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:925738 original size:36 final size:36
Alignment explanation
Indices: 925683--926014 Score: 333
Period size: 36 Copynumber: 9.2 Consensus size: 36
925673 AATTTACTCA
* *
925683 AAACAAAGTTTTGTTTCTCTTGAGATAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
925720 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
925756 AAACAAATTTTGTCTCTCTTGAGACAGCTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
925792 AAACAAA------ATCT-TTGA-ATATGTTT-TACATT-
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCT-C-TTG
* * * *
925821 AAACAAATTTCGTCTCCCTTGAAACAGTTTCTTTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * * * *
925857 GAACTAAGTTTTATCTCTCTTCAGATAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
925894 AAACAAATTTTGTCTTTGTCTATCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTC----TC--TCTTGAGACAGTTTCTCTTG
*
925936 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
925972 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
926008 AAACAAA
1 AAACAAA
926015 ATCTTCGAAT
Statistics
Matches: 248, Mismatches: 27, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.01
29 15 0.06
30 5 0.02
35 4 0.02
36 149 0.60
37 37 0.15
38 2 0.01
40 2 0.01
42 32 0.13
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:925954 original size:21 final size:21
Alignment explanation
Indices: 925929--925993 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
925919 TGAGACAGTT
925929 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
925950 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
925967 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
925986 TCTCTTGA
1 TCTCTTGA
925994 GACAGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:925966 original size:78 final size:72
Alignment explanation
Indices: 925821--926078 Score: 237
Period size: 78 Copynumber: 3.6 Consensus size: 72
925811 GTTTTACATT
* * * * * * *
925821 AAACAAATTTCGTCTCCCTTGAAACAGTTTCTTTTGGAACTAAGTTTTATCTCTCTTCAGATAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTATCTCTCTTCAGACAGT
*
925886 TTCTCTTG
65 TTCCCTTG
* *
925894 AAACAAATTTTGTCTTTGTCTATCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
1 AAACAAATTTTGTC----TC--TCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTCAG
925959 ACAGTTTCCCTTG
60 ACAGTTTCCCTTG
* * *
925972 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA----ATCT-TC--GA-ATATGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTCAGACA-GT
926029 TTCCCTTG
65 TTCCCTTG
*
926037 AAACAAAATTTTGTCTCCCTTGAGACAGTTT-TCCTTGAAACA
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCT-CTTGAAACA
926079 CCCACCGTTG
Statistics
Matches: 161, Mismatches: 15, Indels: 25
0.80 0.07 0.12
Matches are distributed among these distances:
64 2 0.01
65 16 0.10
66 34 0.21
67 2 0.01
68 3 0.02
72 26 0.16
73 13 0.08
74 2 0.01
77 2 0.01
78 41 0.25
79 20 0.12
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTCAGACAGTT
TCCCTTG
Found at i:926067 original size:66 final size:65
Alignment explanation
Indices: 925954--926146 Score: 221
Period size: 66 Copynumber: 2.9 Consensus size: 65
925944 TTTGTCTCTC
* *
925954 TTGAGA-CAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGAGATC-GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAACC
926018 -
65 G
* * **
926018 TTCGA-ATATGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTTCCTTGAAACACCC
1 TT-GAGAT-CGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AA
926082 ACCG
62 ACCG
* ** *
926086 TTGAGATCGTTTCCCTTGAAACAAATTTCGTCTCGTTTGAGACAATTTTCCCTTGAAACAA
1 TTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC-AGTTTCCCTTGAAACAA
926147 GAAATTTTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
64 3 0.03
65 16 0.15
66 53 0.49
67 32 0.30
68 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (65 bp):
TTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAACCG
Found at i:926665 original size:41 final size:43
Alignment explanation
Indices: 926607--926720 Score: 135
Period size: 41 Copynumber: 2.7 Consensus size: 43
926597 TGCAGCAAAG
* *
926607 AATCCATGATTTCAACTCCACGACGGAGGAA-ATTGTACTC-A
1 AATCCACGATTTCAACTCCACGACGGAGGAATATTGTACCCAA
* * *
926648 CATCCACGATTTCAACTCCATGACAGA-GAATATTGTACCCATA
1 AATCCACGATTTCAACTCCACGACGGAGGAATATTGTACCCA-A
* *
926691 AATCCACGATTTCAACTTCACGACGAAGGA
1 AATCCACGATTTCAACTCCACGACGGAGGA
926721 TATCGTGCCA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
40 3 0.05
41 31 0.53
43 23 0.39
44 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
AATCCACGATTTCAACTCCACGACGGAGGAATATTGTACCCAA
Found at i:928842 original size:3 final size:3
Alignment explanation
Indices: 928834--928863 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
928824 ATTATGTTTC
*
928834 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
928864 TCATATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:929161 original size:17 final size:16
Alignment explanation
Indices: 929135--929167 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
929125 TTTCTTTGTT
929135 TTTATATATATTTTTA
1 TTTATATATATTTTTA
929151 TTTATTATATATTTTTA
1 TTTA-TATATATTTTTA
929168 CCCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATATATATTTTTA
Found at i:929177 original size:19 final size:16
Alignment explanation
Indices: 929134--929190 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
929124 TTTTCTTTGT
929134 TTTTATATATATTTTTA
1 TTTT-TATATATTTTTA
929151 TTTATTATATATTTTTA
1 TTT-TTATATATTTTTA
*
929168 CCCTTTTTATATTTTCTTTA
1 ---TTTTTATATATT-TTTA
929188 TTT
1 TTT
929191 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 18 0.53
18 1 0.03
19 8 0.24
20 7 0.21
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATATATTTTTA
Found at i:929275 original size:3 final size:3
Alignment explanation
Indices: 929262--929306 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
929252 TGTTTGCCAT
929262 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
929307 TTCTTCATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:929368 original size:45 final size:43
Alignment explanation
Indices: 929302--929408 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 43
929292 ATTATTATTA
* *
929302 TTATTTTC-TTCATTTTATTTATTTTATTCA-TTTTTACCTTTTCT
1 TTATTTTCATT-ATTTTATTTATTTCATGCATTTTTTA-C-TTTCT
*
929346 TTATTTCTCATTATTTTCTTTATTTCATGCATTTTTTTACTTTCT
1 TTATTT-TCATTATTTTATTTATTTCATGCA-TTTTTTACTTTCT
*
929391 TTATTTTCATTTTTTTAT
1 TTATTTTCATTATTTTAT
929409 CTAACAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
44 16 0.30
45 29 0.54
46 3 0.06
47 6 0.11
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.70
Consensus pattern (43 bp):
TTATTTTCATTATTTTATTTATTTCATGCATTTTTTACTTTCT
Found at i:933212 original size:12 final size:12
Alignment explanation
Indices: 933192--933250 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
933182 ACGGAGATAT
933192 CAGAAATCAGAA
1 CAGAAATCAGAA
* *
933204 CATAAATCAGAG
1 CAGAAATCAGAA
*
933216 CAGAAATCATAA
1 CAGAAATCAGAA
* *
933228 CAGAATTCAGAG
1 CAGAAATCAGAA
*
933240 CAGAAACCAGA
1 CAGAAATCAGA
933251 TAAAATATTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.53, C:0.19, G:0.17, T:0.12
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:933219 original size:24 final size:24
Alignment explanation
Indices: 933192--933250 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
933182 ACGGAGATAT
*
933192 CAGAAATCAGAACATAAATCAGAG
1 CAGAAATCAGAACAGAAATCAGAG
* *
933216 CAGAAATCATAACAGAATTCAGAG
1 CAGAAATCAGAACAGAAATCAGAG
*
933240 CAGAAACCAGA
1 CAGAAATCAGA
933251 TAAAATATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.53, C:0.19, G:0.17, T:0.12
Consensus pattern (24 bp):
CAGAAATCAGAACAGAAATCAGAG
Found at i:934587 original size:14 final size:14
Alignment explanation
Indices: 934568--934595 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
934558 CGGGTCAGGT
934568 CGGGTTGGGTCAAA
1 CGGGTTGGGTCAAA
934582 CGGGTTGGGTCAAA
1 CGGGTTGGGTCAAA
934596 ATTGGGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.43, T:0.21
Consensus pattern (14 bp):
CGGGTTGGGTCAAA
Found at i:935516 original size:2 final size:2
Alignment explanation
Indices: 935505--935534 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
935495 AAAAATTATC
935505 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
935535 AACTCAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:936955 original size:14 final size:15
Alignment explanation
Indices: 936922--936961 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
936912 TAATAATTTG
936922 TTTTAATTTAATATAA
1 TTTT-ATTTAATATAA
936938 -TTTATTT-ATATAA
1 TTTTATTTAATATAA
936951 TTTTA-TTAATA
1 TTTTATTTAATA
936962 AATCCATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.36
14 11 0.50
15 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTATTTAATATAA
Found at i:943103 original size:21 final size:20
Alignment explanation
Indices: 943017--943174 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
943007 AAATGACCAA
**
943017 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
943036 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
943056 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
943076 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
943097 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
943118 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
943138 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
943159 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
943175 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:943358 original size:20 final size:20
Alignment explanation
Indices: 943142--943371 Score: 232
Period size: 20 Copynumber: 11.4 Consensus size: 20
943132 GATTTTCAAG
* ** *
943142 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
943162 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
943182 AATCGCAACACGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
943202 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
943222 AATCGCAACGCGTATCCATA
1 AATCGCAACGCGTATCCGTA
* *
943242 AATCGCAATGCGTATCTGTA
1 AATCGCAACGCGTATCCGTA
*
943262 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
943282 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
943303 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
943323 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
943343 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
943363 AATCACAAC
1 AATCGCAAC
943372 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 154 0.88
21 19 0.11
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:944100 original size:24 final size:24
Alignment explanation
Indices: 944061--944107 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
944051 AAATTTGGTC
944061 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
944085 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
944108 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:946627 original size:33 final size:34
Alignment explanation
Indices: 946576--946740 Score: 183
Period size: 33 Copynumber: 4.7 Consensus size: 34
946566 CGGAAATTAC
* *
946576 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
946609 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
946643 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
946681 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
946714 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
946741 CGAGAGAATC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.44
34 16 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 26 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:946659 original size:19 final size:19
Alignment explanation
Indices: 946590--946778 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
946580 GCAACGAGAG
946590 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
946609 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
946623 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
946643 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
946662 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
946681 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
946695 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
946714 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
946733 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
946747 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
946766 AATCGCATTGCGA
1 AATCGCAATGCGA
946779 TTCTCTCGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 84 0.58
20 16 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:946717 original size:52 final size:52
Alignment explanation
Indices: 946576--946778 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
946566 CGGAAATTAC
*
946576 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
946623 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
946681 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
946733 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
946779 TTCTCTCGTT
Statistics
Matches: 140, Mismatches: 5, Indels: 17
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 85 0.61
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:946826 original size:53 final size:51
Alignment explanation
Indices: 946768--946883 Score: 196
Period size: 53 Copynumber: 2.2 Consensus size: 51
946758 GAAATTAAAA
*
946768 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGA-TTTCATT
*
946821 TCGCATTACGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATT
946872 TCGCATTGCGAT
1 TCGCATTGCGAT
946884 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 18 0.30
52 9 0.15
53 33 0.55
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (51 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTCATT
Found at i:946864 original size:19 final size:19
Alignment explanation
Indices: 946787--946883 Score: 116
Period size: 18 Copynumber: 5.4 Consensus size: 19
946777 GATTCTCTCG
*
946787 TTGCGATTTTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
946807 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
946826 TTACGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
946840 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
946859 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
946877 TTGCGAT
1 TTGCGAT
946884 AGTCATTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
14 5 0.08
16 7 0.11
17 7 0.11
18 18 0.27
19 14 0.21
20 15 0.23
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:947009 original size:14 final size:14
Alignment explanation
Indices: 946990--947026 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
946980 CATCAATTAC
946990 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
947004 ACAAATCATCTTTT
1 ACAAATCAACTTTT
947018 ACAAATCAA
1 ACAAATCAA
947027 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:948991 original size:19 final size:19
Alignment explanation
Indices: 948949--949102 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
948939 TAGTTTACTT
* *
948949 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
948969 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
948988 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
949007 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
949026 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
949040 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
949059 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
949073 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
949092 TCGCAATGCGA
1 TCGCAACGCGA
949103 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 21
0.75 0.10 0.14
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 63 0.58
20 12 0.11
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:949043 original size:14 final size:14
Alignment explanation
Indices: 949024--949080 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
949014 GCGAAATGAA
*
949024 AATCGCAACGACAG
1 AATCGCAACGAAAG
949038 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
949055 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
949071 AATCGCAACG
1 AATCGCAACG
949081 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:949051 original size:33 final size:33
Alignment explanation
Indices: 948967--949097 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
948957 CGAAACTTAA
* *
948967 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
949005 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
949038 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
949071 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
949098 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:949094 original size:52 final size:51
Alignment explanation
Indices: 948966--949102 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
948956 ACGAAACTTA
* * * *
948966 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * * **
949017 AAAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
949069 AGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACGCGAAATGAAAATCGCAATGCGA
949103 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 40 0.61
53 4 0.06
54 9 0.14
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:949133 original size:14 final size:14
Alignment explanation
Indices: 949114--949172 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
949104 TTTGGTTTCG
949114 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
949128 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
949145 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
*
949161 CGTTGTGATTTT
1 CGTTGCGATTTT
949173 CATTTCGCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.07, C:0.15, G:0.29, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:949140 original size:33 final size:33
Alignment explanation
Indices: 949098--949221 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
949088 AAAATCGCAA
*
949098 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
949131 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* ** *
949164 TGTGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
949197 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
949222 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 69 0.85
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:949152 original size:19 final size:19
Alignment explanation
Indices: 949098--949156 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
949088 AAAATCGCAA
949098 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
949117 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
949131 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
949150 TGCGATT
1 TGCGATT
949157 CTGTCGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:949189 original size:19 final size:18
Alignment explanation
Indices: 949098--949189 Score: 56
Period size: 19 Copynumber: 5.4 Consensus size: 18
949088 AAAATCGCAA
*
949098 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
949117 TGCGA-TTT-TGT--CGT
1 TGCGATTTTCTTTCGCGT
*
949131 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
949150 TGCGA--TTCTGT--CGT
1 TGCGATTTTCTTTCGCGT
*
949164 TGTGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
949183 TGCGATT
1 TGCGATT
949190 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
14 15 0.27
15 3 0.05
16 7 0.12
17 6 0.11
18 3 0.05
19 22 0.39
ACGTcount: A:0.08, C:0.16, G:0.28, T:0.48
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:949478 original size:93 final size:93
Alignment explanation
Indices: 949319--949820 Score: 977
Period size: 93 Copynumber: 5.4 Consensus size: 93
949309 TCAGGGTATT
949319 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
949384 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
949412 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
949477 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
949505 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
949570 TATTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
949598 AGTTTAGCATAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
949663 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
949691 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
949756 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
949784 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
949821 AAGCAATCTA
Statistics
Matches: 404, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 404 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:951552 original size:21 final size:21
Alignment explanation
Indices: 951498--951559 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 21
951488 TCTTTTGGTT
951498 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
951519 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
951539 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
951560 ATCGCAACGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Done.