Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 90 of 126
Found at i:27432117 original size:31 final size:32
Alignment explanation
Indices: 27432082--27432146 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
27432072 CTTAGATAAT
27432082 TTTAAAGAG-TTTAAGTAGGATTCAATTACTC
1 TTTAAAGAGTTTTAAGTAGGATTCAATTACTC
* *
27432113 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTAAGTAGGATTCAATTACTC
27432145 TT
1 TT
27432147 GTAATTTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (32 bp):
TTTAAAGAGTTTTAAGTAGGATTCAATTACTC
Found at i:27432711 original size:11 final size:11
Alignment explanation
Indices: 27432693--27432726 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
27432683 AAACAGCAAA
27432693 AAGAAAAAGAAG
1 AAGAAAAA-AAG
27432705 AAGAAAAAAAG
1 AAGAAAAAAAG
27432716 AAGAAGAAAAA
1 AAGAA-AAAAA
27432727 AAGTGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:27432711 original size:17 final size:18
Alignment explanation
Indices: 27432690--27432729 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
27432680 AAAAAACAGC
27432690 AAAAAGAAA-AAGAAGAA
1 AAAAAGAAAGAAGAAGAA
*
27432707 GAAAA-AAAGAAGAAGAA
1 AAAAAGAAAGAAGAAGAA
27432724 AAAAAG
1 AAAAAG
27432730 TGTAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAGAAGAA
Found at i:27432713 original size:14 final size:14
Alignment explanation
Indices: 27432696--27432729 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
27432686 CAGCAAAAAG
27432696 AAAAAGAAGAAGAA
1 AAAAAGAAGAAGAA
27432710 AAAAAGAAGAAGAA
1 AAAAAGAAGAAGAA
27432724 AAAAAG
1 AAAAAG
27432730 TGTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGAAGAA
Found at i:27438328 original size:31 final size:32
Alignment explanation
Indices: 27438292--27438356 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
27438282 CTTAGATAAT
27438292 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
27438323 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
27438355 TT
1 TT
27438357 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:27444125 original size:16 final size:16
Alignment explanation
Indices: 27444104--27444135 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27444094 TGTTCGATTT
27444104 TTGAGAGATTTCAAGA
1 TTGAGAGATTTCAAGA
27444120 TTGAGAGATTTCAAGA
1 TTGAGAGATTTCAAGA
27444136 AAAAGCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TTGAGAGATTTCAAGA
Found at i:27445792 original size:14 final size:15
Alignment explanation
Indices: 27445773--27445803 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
27445763 ATTTTTATAC
27445773 TTTTAATAT-AAATT
1 TTTTAATATAAAATT
27445787 TTTTAATATAAAATT
1 TTTTAATATAAAATT
27445802 TT
1 TT
27445804 CTATACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAATATAAAATT
Found at i:27446035 original size:26 final size:26
Alignment explanation
Indices: 27446005--27446064 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
27445995 TTTTACTTTT
*
27446005 CCCCAAAAAAATTACTTCCTCCAAAC
1 CCCCAAAAAAATTACTTCCGCCAAAC
***
27446031 CCCCAAAACTTTTACTTCCGCCAAAC
1 CCCCAAAAAAATTACTTCCGCCAAAC
27446057 CCCTCAAA
1 CCC-CAAA
27446065 TTTTTTTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.37, C:0.42, G:0.02, T:0.20
Consensus pattern (26 bp):
CCCCAAAAAAATTACTTCCGCCAAAC
Found at i:27446202 original size:17 final size:17
Alignment explanation
Indices: 27446144--27446202 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
27446134 TTATGTCTAC
27446144 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
* *
27446161 TAAATTTCATATT-TTGTAC
1 T--ATTT-ATATTATTGAAT
27446180 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
*
27446197 TGTTTA
1 TATTTA
27446203 ATCATGCTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
19 9 0.27
20 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:27446502 original size:19 final size:19
Alignment explanation
Indices: 27446478--27446515 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27446468 AAAGTTAATA
27446478 ACAAAATTGATTACGGTGG
1 ACAAAATTGATTACGGTGG
*
27446497 ACAAAATTGATTATGGTGG
1 ACAAAATTGATTACGGTGG
27446516 GTGACAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (19 bp):
ACAAAATTGATTACGGTGG
Found at i:27455251 original size:43 final size:44
Alignment explanation
Indices: 27455198--27455287 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
27455188 ATAGGTCACA
* * *
27455198 TAATATTAAAATAAACTACATTAAT-AAGATTTTAAGTGGGAAAC
1 TAATATTAAAAGAAACTACACTAATCAA-AGTTTAAGTGGGAAAC
* *
27455242 TAAT-TTAAAAGAATCTACACTAATCAAAGTTTAAGTGGTAAAC
1 TAATATTAAAAGAAACTACACTAATCAAAGTTTAAGTGGGAAAC
27455285 TAA
1 TAA
27455288 AAACAAAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 34 0.85
44 6 0.15
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (44 bp):
TAATATTAAAAGAAACTACACTAATCAAAGTTTAAGTGGGAAAC
Found at i:27455983 original size:30 final size:27
Alignment explanation
Indices: 27455920--27455984 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
27455910 TTCTTGATTT
*
27455920 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
27455947 ATATTATAAATTATATTAATTAAAGTTAAG
1 ATATTATAAA-AATATT-ATTAAA-TTAAA
27455977 ATATTATA
1 ATATTATA
27455985 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 5 0.16
30 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:27456125 original size:3 final size:3
Alignment explanation
Indices: 27456117--27456154 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
27456107 GTGAATTAAA
*
27456117 TAT TAT TA- TAT TAT TAT TAT ATAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA
27456155 ACTAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:27456184 original size:9 final size:9
Alignment explanation
Indices: 27456170--27456213 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
27456160 TACATAAAAG
27456170 AAAAGAAAC
1 AAAAGAAAC
*
27456179 AAAAG-AAG
1 AAAAGAAAC
27456187 AAAAGAAAC
1 AAAAGAAAC
*
27456196 AAAAG-AAG
1 AAAAGAAAC
27456204 AAAAGAAAC
1 AAAAGAAAC
27456213 A
1 A
27456214 GAGACCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAGAAAC
Found at i:27456189 original size:17 final size:17
Alignment explanation
Indices: 27456167--27456213 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
27456157 TAATACATAA
27456167 AAGAAAAGAAACAAAAG
1 AAGAAAAGAAACAAAAG
27456184 AAGAAAAGAAACAAAAG
1 AAGAAAAGAAACAAAAG
27456201 AAGAAAAGAAACA
1 AAGAAAAGAAACA
27456214 GAGACCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAACAAAAG
Found at i:27456192 original size:8 final size:8
Alignment explanation
Indices: 27456167--27456210 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
27456157 TAATACATAA
27456167 AAGAAAAG
1 AAGAAAAG
*
27456175 AAACAAAAG
1 -AAGAAAAG
27456184 AAGAAAAG
1 AAGAAAAG
*
27456192 AAACAAAAG
1 -AAGAAAAG
27456201 AAGAAAAG
1 AAGAAAAG
27456209 AA
1 AA
27456211 ACAGAGACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 16 0.53
9 14 0.47
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (8 bp):
AAGAAAAG
Found at i:27456453 original size:16 final size:16
Alignment explanation
Indices: 27456432--27456470 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27456422 TTATGTGTAT
27456432 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
27456448 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
27456464 GGTAAGT
1 GGTAAGT
27456471 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:27456850 original size:21 final size:21
Alignment explanation
Indices: 27456777--27456886 Score: 123
Period size: 23 Copynumber: 5.1 Consensus size: 21
27456767 GGCTTTACTG
27456777 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
27456798 ACATCAGGCACTTTATGTGTTGT
1 --ATCAGGCACTTTATGTGTCGT
27456821 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
* ** *
27456844 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGT
*
27456865 TTCAGGCAC-TTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
27456885 AT
1 AT
27456887 ACTAATCAGG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.12
21 25 0.34
23 40 0.54
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:27462635 original size:30 final size:31
Alignment explanation
Indices: 27462599--27462664 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
27462589 ATTGGGACTC
*
27462599 TTAGATTAGAG-TTGTCTCTCAACGTGTTTT
1 TTAGATTAGAGTTTGTCTCTCAACATGTTTT
27462629 TTAGATTAGAGTTACTTGTCTCTCAACATGTTTT
1 TTAGATTAGAG-T--TTGTCTCTCAACATGTTTT
27462663 TT
1 TT
27462665 CTTTGTTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 11 0.35
34 20 0.65
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (31 bp):
TTAGATTAGAGTTTGTCTCTCAACATGTTTT
Found at i:27463020 original size:3 final size:3
Alignment explanation
Indices: 27463012--27463064 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
27463002 GCAATCAGAC
27463012 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27463060 TAT TA
1 TAT TA
27463065 GATTTAGTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27463747 original size:8 final size:8
Alignment explanation
Indices: 27463734--27463771 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
27463724 GGTTAATTTG
27463734 TTTTTTTC
1 TTTTTTTC
27463742 -TTTTTTC
1 TTTTTTTC
27463749 ATTTTTTTC
1 -TTTTTTTC
*
27463758 TTTTTTTG
1 TTTTTTTC
27463766 TTTTTT
1 TTTTTT
27463772 CATTTTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:27463769 original size:16 final size:16
Alignment explanation
Indices: 27463730--27463771 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27463720 CATGGGTTAA
27463730 TTTGTTTTTTTCTTTT
1 TTTGTTTTTTTCTTTT
**
27463746 TTCATTTTTTTCTTTT
1 TTTGTTTTTTTCTTTT
27463762 TTTGTTTTTT
1 TTTGTTTTTT
27463772 CATTTTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.86
Consensus pattern (16 bp):
TTTGTTTTTTTCTTTT
Found at i:27463769 original size:24 final size:24
Alignment explanation
Indices: 27463734--27463779 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
27463724 GGTTAATTTG
27463734 TTTTTTTCTTTTTTCATTTTTTTC
1 TTTTTTTCTTTTTTCATTTTTTTC
*
27463758 TTTTTTTGTTTTTTCATTTTTT
1 TTTTTTTCTTTTTTCATTTTTT
27463780 AGTAGATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (24 bp):
TTTTTTTCTTTTTTCATTTTTTTC
Found at i:27463777 original size:16 final size:15
Alignment explanation
Indices: 27463730--27463779 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
27463720 CATGGGTTAA
27463730 TTTGTTTTTTTCTTTT
1 TTTG-TTTTTTCTTTT
27463746 TTCAT-TTTTTTCTTTT
1 TT--TGTTTTTTCTTTT
27463762 TTTGTTTTTTCATTTT
1 TTTGTTTTTTC-TTTT
27463778 TT
1 TT
27463780 AGTAGATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 21 0.70
18 1 0.03
ACGTcount: A:0.04, C:0.08, G:0.04, T:0.84
Consensus pattern (15 bp):
TTTGTTTTTTCTTTT
Found at i:27463831 original size:28 final size:28
Alignment explanation
Indices: 27463791--27463846 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27463781 GTAGATGGAT
27463791 TAAAATGTAATCTAAGATATATTAAGGG
1 TAAAATGTAATCTAAGATATATTAAGGG
27463819 TAAAATGTAATCTAAGATATATTAAGGG
1 TAAAATGTAATCTAAGATATATTAAGGG
27463847 GATTTGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (28 bp):
TAAAATGTAATCTAAGATATATTAAGGG
Found at i:27466443 original size:3 final size:3
Alignment explanation
Indices: 27466435--27466511 Score: 70
Period size: 3 Copynumber: 25.7 Consensus size: 3
27466425 TATACATGAA
* *
27466435 AAT AAT AAT TAC AAT -AT CAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
27466480 AAT AAAC AAGT AAT AGT -AT AAT -AT AAT AAT AA
1 AAT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
27466512 ATAAATAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
2 5 0.08
3 49 0.82
4 6 0.10
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27468383 original size:18 final size:18
Alignment explanation
Indices: 27468340--27468383 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
27468330 AAATATAATA
*
27468340 AAAAG-AAATCAACAAAT
1 AAAAGTAAATAAACAAAT
27468357 AAAAGTAAATAAACAAAT
1 AAAAGTAAATAAACAAAT
*
27468375 AAAATTAAA
1 AAAAGTAAA
27468384 GCACTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAGTAAATAAACAAAT
Found at i:27468660 original size:24 final size:23
Alignment explanation
Indices: 27468633--27468677 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
27468623 ATTTAAGAAG
* *
27468633 AGATATAGATATATATACATAATA
1 AGATATAAAGATATATA-ATAATA
27468657 AGATATAAAGATATATAATAA
1 AGATATAAAGATATATAATAA
27468678 GATATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
AGATATAAAGATATATAATAATA
Found at i:27468662 original size:18 final size:18
Alignment explanation
Indices: 27468639--27468687 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
27468629 GAAGAGATAT
27468639 AGATATATATACATAATA
1 AGATATATATACATAATA
* *
27468657 AGATATAAAGATATATAATA
1 AGATAT--ATATACATAATA
*
27468677 AGATATGTATA
1 AGATATATATA
27468688 TAAATAGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.36
20 16 0.64
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (18 bp):
AGATATATATACATAATA
Found at i:27468779 original size:14 final size:14
Alignment explanation
Indices: 27468746--27468772 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27468736 AATAAGCAAA
27468746 AATAATAATATAAC
1 AATAATAATATAAC
27468760 AATAATAATATAA
1 AATAATAATATAA
27468773 GGCTAATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATATAAC
Found at i:27470237 original size:15 final size:15
Alignment explanation
Indices: 27470217--27470250 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27470207 AATGGACTGA
27470217 ATTTTA-TTTTATTT
1 ATTTTATTTTTATTT
27470231 GATTTTATTTTTATTT
1 -ATTTTATTTTTATTT
27470247 ATTT
1 ATTT
27470251 AATATGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
ATTTTATTTTTATTT
Found at i:27470668 original size:21 final size:21
Alignment explanation
Indices: 27470627--27470665 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27470617 ATTCAATTTT
*
27470627 TTTTATTTAATTTATTATTAA
1 TTTTATTTAATTTATGATTAA
*
27470648 TTTTATTT-TTTTATGATT
1 TTTTATTTAATTTATGATT
27470666 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTTAATTTATGATTAA
Found at i:27471019 original size:21 final size:21
Alignment explanation
Indices: 27470980--27471020 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27470970 TTATTTAATT
27470980 TAAATTTTTATGATATAAAAA
1 TAAATTTTTATGATATAAAAA
*
27471001 TAAATATTTTAT-ATTTAAAA
1 TAAAT-TTTTATGATATAAAA
27471021 TCCTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATTTTTATGATATAAAAA
Found at i:27474570 original size:31 final size:30
Alignment explanation
Indices: 27474532--27474636 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 30
27474522 TAATCACATT
*
27474532 AATATTAAATTAATAAAATATTATATAGGTA
1 AATATTAAATTAATAAAATACTATATA-GTA
** * *
27474563 AATATTAAATTAAATTTAAT-GTATCATA-TT
1 AATATTAAATT-AATAAAATACTAT-ATAGTA
* *
27474593 AATATTAATTTAATAAAATACTATTTAGATA
1 AATATTAAATTAATAAAATACTATATAG-TA
27474624 AATATTAAATTAA
1 AATATTAAATTAA
27474637 ATTTAATATC
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
29 8 0.14
30 14 0.24
31 27 0.47
32 9 0.16
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (30 bp):
AATATTAAATTAATAAAATACTATATAGTA
Found at i:27474626 original size:61 final size:61
Alignment explanation
Indices: 27474524--27474669 Score: 211
Period size: 61 Copynumber: 2.4 Consensus size: 61
27474514 ATTAGAGTTA
* * * *
27474524 ATCACATTAATATTAAATTAATAAAATATTATATAGGTAAATATTAAATTAAATTTAATGT
1 ATCATATTAATATTAAATTAATAAAATACTATATAGATAAATATTAAATTAAATTTAATAT
* *
27474585 ATCATATTAATATTAATTTAATAAAATACTATTTAGATAAATATTAAATTAAATTTAATAT
1 ATCATATTAATATTAAATTAATAAAATACTATATAGATAAATATTAAATTAAATTTAATAT
* *
27474646 CTCATATTAATATCTAAATAAATA
1 ATCATATTAATAT-TAAATTAATA
27474670 TTAAATTCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
61 67 0.89
62 8 0.11
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
ATCATATTAATATTAAATTAATAAAATACTATATAGATAAATATTAAATTAAATTTAATAT
Found at i:27476040 original size:49 final size:49
Alignment explanation
Indices: 27475957--27476144 Score: 216
Period size: 51 Copynumber: 3.8 Consensus size: 49
27475947 AAAGTGAAAG
* *
27475957 TGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
* * * *
27476005 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTTCCAGA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
* * * * * *
27476054 TAGTTTCGATCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCAGA
1 T-G-ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
*
27476105 TGGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TGAT-A-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
27476145 TGTGAACCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.04
49 40 0.35
50 2 0.02
51 68 0.60
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (49 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA
Found at i:27476083 original size:100 final size:102
Alignment explanation
Indices: 27475963--27476146 Score: 309
Period size: 100 Copynumber: 1.8 Consensus size: 102
27475953 AAAGTGATGG
* * *
27475963 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAT-A-GGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
27476026 CTATGTGCAGGCTACTATGCGTTCCAGATAGTTTCGA
66 CTATGTGCAGGCTACTATGCGTTCCAGATAGTTTCGA
* *
27476063 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCAGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
27476128 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
27476147 TGAACCGAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 42 0.55
101 1 0.01
102 34 0.44
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTTCCAGATAGTTTCGA
Found at i:27476207 original size:45 final size:45
Alignment explanation
Indices: 27476156--27476243 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
27476146 GTGAACCGAA
* *
27476156 CATCATTGATTAGTAAGGTGATTGCTATGTGCTGATTCCACCGGC
1 CATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGGC
*
27476201 CATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 CATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCG
27476244 AGTATTTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (45 bp):
CATCATTGATTAATAAGGTGATTGCTATGTGCTGAATCCACCGGC
Found at i:27491917 original size:13 final size:13
Alignment explanation
Indices: 27491901--27491927 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27491891 TTTAGTTCAT
27491901 TTATTTATTTTTG
1 TTATTTATTTTTG
27491914 TTATTTATTTTTG
1 TTATTTATTTTTG
27491927 T
1 T
27491928 CCTCTTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTATTTATTTTTG
Found at i:27502851 original size:9 final size:9
Alignment explanation
Indices: 27502833--27502866 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
27502823 TAATATTTAT
27502833 TTTAATTAA
1 TTTAATTAA
*
27502842 TTTGATTAA
1 TTTAATTAA
27502851 TTTAATTAA
1 TTTAATTAA
27502860 TTTAATT
1 TTTAATT
27502867 TTACTTGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTAATTAA
Found at i:27511482 original size:15 final size:15
Alignment explanation
Indices: 27511464--27511494 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27511454 ATTAATGAAA
27511464 ATCAAATGTATTACT
1 ATCAAATGTATTACT
27511479 ATCAAATGTATTACT
1 ATCAAATGTATTACT
27511494 A
1 A
27511495 AAGCAAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
ATCAAATGTATTACT
Found at i:27511913 original size:7 final size:7
Alignment explanation
Indices: 27511901--27511927 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
27511891 AATGCAAAAG
27511901 AAAAATT
1 AAAAATT
27511908 AAAAATT
1 AAAAATT
27511915 AAAAATT
1 AAAAATT
27511922 AAAAAT
1 AAAAAT
27511928 AACTTAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:27518948 original size:136 final size:136
Alignment explanation
Indices: 27518699--27518963 Score: 494
Period size: 136 Copynumber: 1.9 Consensus size: 136
27518689 TCTTATCCCC
* *
27518699 CTTTATCCTAGCTGAAACCGTCACATGAAAACAGCTTCAGCCTAAAAGAATTCTATTTTATTTGA
1 CTTTATCCTAGCTAAAACCATCACATGAAAACAGCTTCAGCCTAAAAGAATTCTATTTTATTTGA
*
27518764 ACTCTTCAAGGCTGATTAAATTTCCTTGAATCACTTGAGGTCGGCCACCGCTTGCAAGAAGGGAA
66 ACTCTTCAAGGCTGATTAAATTTCCTTGAATCACTTGAGGTCGACCACCGCTTGCAAGAAGGGAA
27518829 TTTACT
131 TTTACT
27518835 CTTTATCCTAGCTAAAACCATCACATGAAAACAGCTTCAGCCTAAAAGAATTCTATTTTATTTGA
1 CTTTATCCTAGCTAAAACCATCACATGAAAACAGCTTCAGCCTAAAAGAATTCTATTTTATTTGA
*
27518900 ACTCTTCAAGGTTGATTAAATTTCCTTGAATCACTTGAGGTCGACCACCGCTTGCAAGAAGGGA
66 ACTCTTCAAGGCTGATTAAATTTCCTTGAATCACTTGAGGTCGACCACCGCTTGCAAGAAGGGA
27518964 GTTTGGGGAG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 125 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (136 bp):
CTTTATCCTAGCTAAAACCATCACATGAAAACAGCTTCAGCCTAAAAGAATTCTATTTTATTTGA
ACTCTTCAAGGCTGATTAAATTTCCTTGAATCACTTGAGGTCGACCACCGCTTGCAAGAAGGGAA
TTTACT
Found at i:27519729 original size:14 final size:14
Alignment explanation
Indices: 27519710--27519738 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27519700 AGGCATTTTC
27519710 GGTCAATAAAGGAT
1 GGTCAATAAAGGAT
27519724 GGTCAATAAAGGAT
1 GGTCAATAAAGGAT
27519738 G
1 G
27519739 CTATGTTGCA
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:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (14 bp):
GGTCAATAAAGGAT
Found at i:27521501 original size:25 final size:25
Alignment explanation
Indices: 27521447--27521592 Score: 79
Period size: 25 Copynumber: 5.9 Consensus size: 25
27521437 AATTCTCATA
**
27521447 AGAGCACATA-AACGGGAAGCTCTTCG
1 AGAGC-CATATAACGGGAAGCTC-AAG
27521473 -GAGCCATATAACGGGAAGCTCAAG
1 AGAGCCATATAACGGGAAGCTCAAG
* * * * *
27521497 TGAGCTATGTAACAGAAAGCTCATA-
1 AGAGCCATATAACGGGAAGCTCA-AG
* *
27521522 AGAGCCATAT-TCGGGAAGCTCATG
1 AGAGCCATATAACGGGAAGCTCAAG
* ** *
27521546 CGAGCCA-ATATTGGGAAGCTCTAG
1 AGAGCCATATAACGGGAAGCTCAAG
* *
27521570 AGATCCAT-TAATCGGGAAACTCA
1 AGAGCCATATAA-CGGGAAGCTCA
27521593 TGAAAGAGCC
Statistics
Matches: 90, Mismatches: 23, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
23 2 0.02
24 38 0.42
25 49 0.54
26 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
AGAGCCATATAACGGGAAGCTCAAG
Found at i:27521544 original size:24 final size:24
Alignment explanation
Indices: 27521513--27521651 Score: 77
Period size: 25 Copynumber: 5.6 Consensus size: 24
27521503 ATGTAACAGA
27521513 AAGCTCATAAGAGCCATATTCGGG
1 AAGCTCATAAGAGCCATATTCGGG
**
27521537 AAGCTCATGCGAGCCAATATT-GGG
1 AAGCTCATAAGAGCC-ATATTCGGG
* *
27521561 AAGCTC-TAGAGATCCATTAATCGGG
1 AAGCTCATA-AGAGCCA-TATTCGGG
* * * **
27521586 AAACTCATGAAAGAGCCTTTAATCAAG
1 AAGCTCAT--AAGAGCC-ATATTCGGG
* *
27521613 AAGCTC-TGGAGAGCCATATATCAGG
1 AAGCTCAT-AAGAGCCATAT-TCGGG
*
27521638 ATGCTCATAAGAGC
1 AAGCTCATAAGAGC
27521652 TACGGTGTGT
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
23 2 0.02
24 31 0.36
25 33 0.38
26 3 0.03
27 16 0.19
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGCTCATAAGAGCCATATTCGGG
Found at i:27521730 original size:24 final size:24
Alignment explanation
Indices: 27521703--27521785 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 24
27521693 GATGCTCCAA
* *
27521703 AGAGCTATTAACAGGAAGCTCGTG
1 AGAGCCATTAACAGGAAGCTCATG
* * *
27521727 AGAGCCATATATCAAGAAGCTCAAG
1 AGAGCCAT-TAACAGGAAGCTCATG
* * * *
27521752 AGAGCCAATAACTGGATGCTCATA
1 AGAGCCATTAACAGGAAGCTCATG
*
27521776 AGAGCTATTA
1 AGAGCCATTA
27521786 TCGGGATGCT
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
24 25 0.57
25 19 0.43
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (24 bp):
AGAGCCATTAACAGGAAGCTCATG
Found at i:27530396 original size:14 final size:14
Alignment explanation
Indices: 27530377--27530408 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27530367 AGCTTGCTTG
27530377 GAAATAGTGGTCCC
1 GAAATAGTGGTCCC
27530391 GAAATAGTGGTCCC
1 GAAATAGTGGTCCC
27530405 GAAA
1 GAAA
27530409 CCACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (14 bp):
GAAATAGTGGTCCC
Found at i:27540389 original size:11 final size:11
Alignment explanation
Indices: 27540369--27540405 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
27540359 TAAATCAAAC
27540369 ATAA-TCATAA
1 ATAATTCATAA
27540379 ATAATTCATAA
1 ATAATTCATAA
*
27540390 ATAATTTATAA
1 ATAATTCATAA
27540401 ATAAT
1 ATAAT
27540406 CATTTCCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAATTCATAA
Found at i:27543274 original size:12 final size:12
Alignment explanation
Indices: 27543257--27543286 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27543247 TCAGAGAGTT
27543257 ACACGGGCACAA
1 ACACGGGCACAA
*
27543269 ACACGGGCACAG
1 ACACGGGCACAA
27543281 ACACGG
1 ACACGG
27543287 TCGTGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.33, G:0.30, T:0.00
Consensus pattern (12 bp):
ACACGGGCACAA
Found at i:27544697 original size:26 final size:26
Alignment explanation
Indices: 27544659--27544734 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
27544649 CTGTTATATA
*
27544659 AATCATCAACTCAAAGCCTACTAACT
1 AATCATCGACTCAAAGCCTACTAACT
* *
27544685 AATCATCGGCTCAAAGCCTGCTAACT
1 AATCATCGACTCAAAGCCTACTAACT
*
27544711 AATCACCGACTCAAAGCCTACTAA
1 AATCATCGACTCAAAGCCTACTAA
27544735 TCAGCCACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.21
Consensus pattern (26 bp):
AATCATCGACTCAAAGCCTACTAACT
Found at i:27544725 original size:52 final size:51
Alignment explanation
Indices: 27544667--27544781 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 51
27544657 TAAATCATCA
* * *
27544667 ACTCAAAGCCTACTAA-CTAATCA-TCGGCTCAAAGCCTGCTAACTAATCACC
1 ACTCAAAGCCTACTAATC-AACCACT-AGCTCAAAGCCTGCTAACTAACCACC
* *
27544718 GACTCAAAGCCTACTAATCAGCCACTAGCTCAAAGCTTGCTAACTAACCACC
1 -ACTCAAAGCCTACTAATCAACCACTAGCTCAAAGCCTGCTAACTAACCACC
27544770 AGCTCAAAGCCT
1 A-CTCAAAGCCT
27544782 GCTATCAGTC
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
51 1 0.02
52 52 0.95
53 2 0.04
ACGTcount: A:0.35, C:0.34, G:0.11, T:0.20
Consensus pattern (51 bp):
ACTCAAAGCCTACTAATCAACCACTAGCTCAAAGCCTGCTAACTAACCACC
Found at i:27544749 original size:26 final size:26
Alignment explanation
Indices: 27544693--27544789 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 26
27544683 CTAATCATCG
**
27544693 GCTCAAAGCCTGCTAA-CTAATCACC-
1 GCTCAAAGCCTGCTAATC-AGCCACCA
* *
27544718 GACTCAAAGCCTACTAATCAGCCACTA
1 G-CTCAAAGCCTGCTAATCAGCCACCA
* *
27544745 GCTCAAAGCTTGCTAA-CTAACCACCA
1 GCTCAAAGCCTGCTAATC-AGCCACCA
27544771 GCTCAAAGCCTGCT-ATCAG
1 GCTCAAAGCCTGCTAATCAG
27544790 TCACATACTC
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
25 4 0.07
26 51 0.89
27 2 0.04
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (26 bp):
GCTCAAAGCCTGCTAATCAGCCACCA
Found at i:27550339 original size:24 final size:23
Alignment explanation
Indices: 27550285--27550342 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
27550275 TTTAATTAGT
*
27550285 ATAAAATATTAATAATTCAATAAA
1 ATAAAA-ATTAATAATTAAATAAA
*
27550309 TTGAAAAATTAAATAATTAAATAAA
1 AT-AAAAATT-AATAATTAAATAAA
27550334 ATAAAAATT
1 ATAAAAATT
27550343 TAAGAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAAAATTAATAATTAAATAAA
Found at i:27551163 original size:30 final size:30
Alignment explanation
Indices: 27551106--27551164 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27551096 GTCTTTTGAA
*
27551106 AATATTTACAAAAAGATACATCTAATTTTT
1 AATATTTACAAAAAGATACAACTAATTTTT
* * *
27551136 AATATTTACAAATAGA-GCAACTAAATTTT
1 AATATTTACAAAAAGATACAACTAATTTTT
27551165 GAAAACAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (30 bp):
AATATTTACAAAAAGATACAACTAATTTTT
Found at i:27557455 original size:15 final size:15
Alignment explanation
Indices: 27557429--27557470 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27557419 AATGGAAGGG
27557429 AAATGA-AGAGAAAA
1 AAATGAGAGAGAAAA
27557443 AAATGAGAGAGAAAA
1 AAATGAGAGAGAAAA
*
27557458 GAA-GAGATGAGAA
1 AAATGAGA-GAGAA
27557471 GAGTTCAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (15 bp):
AAATGAGAGAGAAAA
Found at i:27558913 original size:21 final size:21
Alignment explanation
Indices: 27558884--27558937 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
27558874 TTGCACCCAT
27558884 GGCCGTGTGACCTATCCACAA
1 GGCCGTGTGACCTATCCACAA
* *
27558905 GGCTGTGTGACCTATCCGCAA
1 GGCCGTGTGACCTATCCACAA
27558926 GGCCGTGTGACC
1 GGCCGTGTGACC
27558938 CATGCACACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (21 bp):
GGCCGTGTGACCTATCCACAA
Found at i:27563492 original size:2 final size:2
Alignment explanation
Indices: 27563485--27563509 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27563475 GGTTTTGTTT
27563485 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
27563510 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27563917 original size:58 final size:58
Alignment explanation
Indices: 27563827--27563944 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
27563817 TCATGTTCCT
*
27563827 AAATTTGCATTGATTTGCTTTGGCTGATAAATATATATATTTTCATCCCAGTTGTTAA
1 AAATTTGCATTGATTTGCTTTGGCTGATAAATATATATATTTTCATCCCAATTGTTAA
*
27563885 AAATTTGCATTGATTTGCTTTGGCTGATAAATATATATTTTTTCATCCCAATTGTTAA
1 AAATTTGCATTGATTTGCTTTGGCTGATAAATATATATATTTTCATCCCAATTGTTAA
27563943 AA
1 AA
27563945 TACAAAACGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (58 bp):
AAATTTGCATTGATTTGCTTTGGCTGATAAATATATATATTTTCATCCCAATTGTTAA
Found at i:27575459 original size:117 final size:117
Alignment explanation
Indices: 27575252--27575482 Score: 401
Period size: 117 Copynumber: 2.0 Consensus size: 117
27575242 CATGTGGATA
27575252 TAACATCTGTTAATTGAAATTGGATTGAAGCATACATCACTAGCAAAACTTTGGTACCATAATTA
1 TAACATCTGTTAATTGAAATTGGATTGAAGCATACATCACTAGCAAAACTTTGGTACCATAATTA
* *
27575317 AGTTGCTGTTCATATTGCCTTGAAATCAATCTATCATGAAAGAATCAAACTT
66 AGTTGCTCTTCATATTGCCTCGAAATCAATCTATCATGAAAGAATCAAACTT
* * *
27575369 TAACATCTGTTAATTGAAATTGGATTGGAGCATATATCACTAGCAAAA-TTCTGGTGCCATAATT
1 TAACATCTGTTAATTGAAATTGGATTGAAGCATACATCACTAGCAAAACTT-TGGTACCATAATT
27575433 AAGTTGCTCTTCATATTGCCTCGAAATCAATCTATCATGAAAGAATCAAA
65 AAGTTGCTCTTCATATTGCCTCGAAATCAATCTATCATGAAAGAATCAAA
27575483 GCATCAAGGT
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
116 2 0.02
117 106 0.98
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (117 bp):
TAACATCTGTTAATTGAAATTGGATTGAAGCATACATCACTAGCAAAACTTTGGTACCATAATTA
AGTTGCTCTTCATATTGCCTCGAAATCAATCTATCATGAAAGAATCAAACTT
Found at i:27576477 original size:10 final size:10
Alignment explanation
Indices: 27576462--27576506 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
27576452 TATATTTTTA
27576462 AAAAAATTAT
1 AAAAAATTAT
27576472 AAAAAA-T-T
1 AAAAAATTAT
*
27576480 AAAAAATTCT
1 AAAAAATTAT
27576490 AAAAAA-TAT
1 AAAAAATTAT
27576499 AAAAAATT
1 AAAAAATT
27576507 TAAGATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 7 0.23
9 10 0.32
10 14 0.45
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:27576484 original size:9 final size:9
Alignment explanation
Indices: 27576459--27576509 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
27576449 TTTTATATTT
27576459 TTAAAAAAA
1 TTAAAAAAA
27576468 TTATAAAAAA
1 TTA-AAAAAA
27576478 TT-AAAAAA
1 TTAAAAAAA
*
27576486 TTCTAAAAAA
1 TT-AAAAAAA
*
27576496 TATAAAAAAT
1 T-TAAAAAAA
27576506 TTAA
1 TTAA
27576510 GATTTCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 8 0.22
9 6 0.17
10 21 0.58
11 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:27576485 original size:18 final size:19
Alignment explanation
Indices: 27576462--27576506 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
27576452 TATATTTTTA
27576462 AAAAAATTATAAAAAAT-T
1 AAAAAATTATAAAAAATAT
*
27576480 AAAAAATTCTAAAAAATAT
1 AAAAAATTATAAAAAATAT
27576499 AAAAAATT
1 AAAAAATT
27576507 TAAGATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAAAAATAT
Found at i:27576985 original size:66 final size:66
Alignment explanation
Indices: 27576903--27577164 Score: 488
Period size: 66 Copynumber: 4.0 Consensus size: 66
27576893 ACCCCAAATC
27576903 TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
1 TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
27576968 T
66 T
27576969 TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
1 TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
27577034 T
66 T
* *
27577035 TAAGACCATATCACCAAATTCGCATTTACCCGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
1 TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
27577100 T
66 T
* *
27577101 TAAGACCATATCACCAAATTCGCATTTACCCGTCATACATTTACAAAATAGCTTTTCGCTTTCA
1 TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCA
27577165 ATCTGTGGTT
Statistics
Matches: 194, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 194 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.34
Consensus pattern (66 bp):
TAAGACCATATCACCAAATTCGCATTCACCAGTCATACATTTACAAAATAGCTTTTCGCTTTCAT
T
Found at i:27591688 original size:54 final size:54
Alignment explanation
Indices: 27591610--27591833 Score: 344
Period size: 54 Copynumber: 4.1 Consensus size: 54
27591600 CCCTAAAATA
* * **
27591610 GGTAAAATAACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCATATAG
1 GGTAAAATAACCAAAATACCCTCATAAGGTAAAATGACCGAAATACCCCCATAG
* *
27591664 GGTAAAATGACCAAAATACCCTCATAAGGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATAACCAAAATACCCTCATAAGGTAAAATGACCGAAATACCCCCATAG
*
27591718 GGTAAAATAACTAAAATACCCTCATAAGGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATAACCAAAATACCCTCATAAGGTAAAATGACCGAAATACCCCCATAG
*
27591772 GGTAAAATAACCAAAATAACCC-CAT-AGGATAAAATGATCGAAATACCCCCATAG
1 GGTAAAATAACCAAAAT-ACCCTCATAAGG-TAAAATGACCGAAATACCCCCATAG
27591826 GGTAAAAT
1 GGTAAAAT
27591834 GACTGTTAGA
Statistics
Matches: 157, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
53 3 0.02
54 150 0.96
55 4 0.03
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (54 bp):
GGTAAAATAACCAAAATACCCTCATAAGGTAAAATGACCGAAATACCCCCATAG
Found at i:27591749 original size:81 final size:81
Alignment explanation
Indices: 27591609--27591836 Score: 325
Period size: 81 Copynumber: 2.8 Consensus size: 81
27591599 ACCCTAAAAT
*
27591609 AGGTAAAATAACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCAT-ATAGGGTAAAATG
1 AGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCC-TCATAGGGTAAAATG
*
27591673 ACCAAAATACCCTCATA
65 ACCAAAATACCCCCATA
* * * *
27591690 AGGTAAAATAACCGAAATACCCCCATAGGGTAAAAT-AACTAAAATACCCTCATAAGGTAAAATG
1 AGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATG
*
27591754 ACCGAAATACCCCCATA
65 ACCAAAATACCCCCATA
* * * *
27591771 GGGTAAAATAACCAAAATAACCCCATAGGATAAAATGATCGAAATACCCCCATAGGGTAAAATGA
1 AGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGA
27591836 C
66 C
27591837 TGTTAGACCC
Statistics
Matches: 129, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
80 3 0.02
81 124 0.96
82 2 0.02
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (81 bp):
AGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGA
CCAAAATACCCCCATA
Found at i:27591834 original size:27 final size:27
Alignment explanation
Indices: 27591610--27591836 Score: 274
Period size: 27 Copynumber: 8.4 Consensus size: 27
27591600 CCCTAAAATA
* * *
27591610 GGTAAAATAACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* **
27591637 GGTAAAATGATCGAAATACCCATATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
27591664 GGTAAAATGACCAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
27591691 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** * *
27591718 GGTAAAATAACTAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
27591745 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
27591772 GGTAAAATAACCAAAATAACCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
27591799 GATAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
27591826 GGTAAAATGAC
1 GGTAAAATGAC
27591837 TGTTAGACCC
Statistics
Matches: 167, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:27593302 original size:33 final size:33
Alignment explanation
Indices: 27593265--27593364 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
27593255 AGTATACATT
27593265 TATATATACTAGATAAAACAAAACCATTAAACC
1 TATATATACTAGATAAAACAAAACCATTAAACC
* * * * *
27593298 TATATAT-CTATATTATATAATTA-CATT-----
1 TATATATACTAGATAAAACAA-AACCATTAAACC
27593325 TATATATACTAGATAAAACAAAACCATTAAACC
1 TATATATACTAGATAAAACAAAACCATTAAACC
27593358 TATATAT
1 TATATAT
27593365 CTATATTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
27 8 0.16
28 13 0.27
32 13 0.27
33 15 0.31
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (33 bp):
TATATATACTAGATAAAACAAAACCATTAAACC
Found at i:27593352 original size:60 final size:60
Alignment explanation
Indices: 27593259--27593378 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
27593249 AAGTCCAGTA
27593259 TACATTTATATATACTAGATAAAACAAAACCATTAAACCTATATATCTATATTATATAAT
1 TACATTTATATATACTAGATAAAACAAAACCATTAAACCTATATATCTATATTATATAAT
27593319 TACATTTATATATACTAGATAAAACAAAACCATTAAACCTATATATCTATATTATATAAT
1 TACATTTATATATACTAGATAAAACAAAACCATTAAACCTATATATCTATATTATATAAT
27593379 AAAACTCACG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (60 bp):
TACATTTATATATACTAGATAAAACAAAACCATTAAACCTATATATCTATATTATATAAT
Found at i:27593702 original size:24 final size:23
Alignment explanation
Indices: 27593665--27593712 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27593655 ATATATATAC
27593665 TATATATAAAATAAAGCTCATGTA
1 TATATATAAAAT-AAGCTCATGTA
** *
27593689 TATATATATTATAAGTTCATGTA
1 TATATATAAAATAAGCTCATGTA
27593712 T
1 T
27593713 TTTGCACCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (23 bp):
TATATATAAAATAAGCTCATGTA
Found at i:27594830 original size:12 final size:12
Alignment explanation
Indices: 27594813--27594837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27594803 AATTTACACA
27594813 TTTAACCACTAC
1 TTTAACCACTAC
27594825 TTTAACCACTAC
1 TTTAACCACTAC
27594837 T
1 T
27594838 CCAAATTAGT
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTAACCACTAC
Found at i:27597147 original size:63 final size:63
Alignment explanation
Indices: 27597058--27597197 Score: 201
Period size: 63 Copynumber: 2.2 Consensus size: 63
27597048 TCGAACCACA
* * * *
27597058 CACACATATATATAATTCATAACATTAAGTTCAGCT-AAAAAAATTTGTAACATACATTCGAAC
1 CACATATATATATAATTCATAACATTAAATTCAACTCAAAAAAA-TTGAAACATACATTCGAAC
* *
27597121 CTCATATATATATAATTCATAACATTAAATTCAACTCAAAGAAATTGAAACATACATTCGAAC
1 CACATATATATATAATTCATAACATTAAATTCAACTCAAAAAAATTGAAACATACATTCGAAC
*
27597184 CACATGTATATATA
1 CACATATATATATA
27597198 TATATTATAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 62 0.91
64 6 0.09
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (63 bp):
CACATATATATATAATTCATAACATTAAATTCAACTCAAAAAAATTGAAACATACATTCGAAC
Found at i:27597850 original size:24 final size:25
Alignment explanation
Indices: 27597820--27597866 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27597810 ATCAAACATC
*
27597820 ACACAACAC-AAATGTTCATCAATG
1 ACACAACACAAAATATTCATCAATG
*
27597844 ACACAACTCAAAATATTCATCAA
1 ACACAACACAAAATATTCATCAA
27597867 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.49, C:0.26, G:0.04, T:0.21
Consensus pattern (25 bp):
ACACAACACAAAATATTCATCAATG
Found at i:27602184 original size:102 final size:102
Alignment explanation
Indices: 27602064--27602264 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
27602054 CAATGAGTTA
* *
27602064 GGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAACACTTAGCAACCAC
1 GGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
*
27602129 CAATG-ATTCGGGGAATCAGTACTTAGCAACCCCTCTG
66 CAATGAATT-GGGGAATCAGCACTTAGCAACCCCTCTG
* *
27602166 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
*
27602231 TAATGAATTGGGGAATCAGCACTTAGCAACCCCT
66 CAATGAATTGGGGAATCAGCACTTAGCAACCCCT
27602265 TTCACATTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 89 0.97
103 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
CAATGAATTGGGGAATCAGCACTTAGCAACCCCTCTG
Found at i:27602226 original size:42 final size:42
Alignment explanation
Indices: 27602167--27602303 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
27602157 ACCCCTCTGG
27602167 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
* * *
27602209 GGAATCAGCACTTAGCAA-CCAC-T-A-A--TGA-AT-TGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
*
27602242 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
*
27602284 GGAATCAACACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
27602304 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 18 0.23
34 4 0.05
35 3 0.04
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 3 0.04
41 5 0.06
42 37 0.47
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGT
Found at i:27602328 original size:32 final size:27
Alignment explanation
Indices: 27602284--27602364 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 27
27602274 AAGATACGGT
*
27602284 GGAATCAACACTTAGCAACCACCAATGAA
1 GGAATCAGCACTTAGCAACC-CC-ATGAA
* *
27602313 TCGGGAATCAGCACTTAGCAACCCCTTGGA
1 ---GGAATCAGCACTTAGCAACCCCATGAA
27602343 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
27602365 CTTTATATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 22 0.48
30 3 0.07
31 2 0.04
32 19 0.41
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.16
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCATGAA
Found at i:27602334 original size:74 final size:75
Alignment explanation
Indices: 27602166--27602339 Score: 305
Period size: 75 Copynumber: 2.3 Consensus size: 75
27602156 AACCCCTCTG
* *
27602166 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
* *
27602231 TAATGAATTG
66 CAATGAATTC
27602241 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
27602306 CAATGAA-TC
66 CAATGAATTC
27602315 GGGAATCAGCACTTAGCAACCCCTT
1 GGGAATCAGCACTTAGCAACCCCTT
27602340 GGAGGAATCA
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 26 0.27
75 69 0.73
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCAC
CAATGAATTC
Found at i:27604806 original size:227 final size:227
Alignment explanation
Indices: 27604411--27604864 Score: 899
Period size: 227 Copynumber: 2.0 Consensus size: 227
27604401 TTTATCCAAA
27604411 ACCTCGATGTGAACCTCAAATCTCTATCTGATATAATAGACTTAGGCACCCCGTGTAGTCTCACT
1 ACCTCGATGTGAACCTCAAATCTCTATCTGATATAATAGACTTAGGCACCCCGTGTAGTCTCACT
*
27604476 ATTTCAGCAACATATAACTCTGCCAACCTGTCAAGTGAGTAATCAATGCGTACCGGAATGAAATG
66 ATTTCAGCAACATATAACTCTGCCAACCTGTCAAGTGAGTAATCAATGCGTACCGGAATGAAATA
27604541 GGCTGACTTTGTCAATTTATCAACGATTACCCAAATAGCATCCTTCTTCCTTGGAGTCAGAGGCA
131 GGCTGACTTTGTCAATTTATCAACGATTACCCAAATAGCATCCTTCTTCCTTGGAGTCAGAGGCA
27604606 ATCCCGTCACAAAATCCATCGTGATGCTATCC
196 ATCCCGTCACAAAATCCATCGTGATGCTATCC
27604638 ACCTCGATGTGAACCTCAAATCTCTATCTGATATAATAGACTTAGGCACCCCGTGTAGTCTCACT
1 ACCTCGATGTGAACCTCAAATCTCTATCTGATATAATAGACTTAGGCACCCCGTGTAGTCTCACT
27604703 ATTTCAGCAACATATAACTCTGCCAACCTGTCAAGTGAGTAATCAATGCGTACCGGAATGAAATA
66 ATTTCAGCAACATATAACTCTGCCAACCTGTCAAGTGAGTAATCAATGCGTACCGGAATGAAATA
27604768 GGCTGACTTTGTCAATTTATCAACGATTACCCAAATAGCATCCTTCTTCCTTGGAGTCAGAGGCA
131 GGCTGACTTTGTCAATTTATCAACGATTACCCAAATAGCATCCTTCTTCCTTGGAGTCAGAGGCA
27604833 ATCCCGTCACAAAATCCATCGTGATGCTATCC
196 ATCCCGTCACAAAATCCATCGTGATGCTATCC
27604865 TACTTCCACT
Statistics
Matches: 226, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 226 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (227 bp):
ACCTCGATGTGAACCTCAAATCTCTATCTGATATAATAGACTTAGGCACCCCGTGTAGTCTCACT
ATTTCAGCAACATATAACTCTGCCAACCTGTCAAGTGAGTAATCAATGCGTACCGGAATGAAATA
GGCTGACTTTGTCAATTTATCAACGATTACCCAAATAGCATCCTTCTTCCTTGGAGTCAGAGGCA
ATCCCGTCACAAAATCCATCGTGATGCTATCC
Found at i:27614788 original size:63 final size:63
Alignment explanation
Indices: 27614709--27614828 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
27614699 CACATGTATG
* *
27614709 TATATATAATTCATAACATTAAGTTCAGCT-AAAAAAATTTGTAACATACATTCGAACGTCATA
1 TATATATAATTCATAACATTAAATTCAGCTCAAAAAAA-TTGAAACATACATTCGAACGTCATA
*
27614772 TATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAAC
1 TATATATAATTCATAACATTAAATTCAGCTCAAAAAAATTGAAACATACATTCGAAC
27614829 CACATGTGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
63 47 0.89
64 6 0.11
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (63 bp):
TATATATAATTCATAACATTAAATTCAGCTCAAAAAAATTGAAACATACATTCGAACGTCATA
Found at i:27614841 original size:63 final size:63
Alignment explanation
Indices: 27614691--27614842 Score: 189
Period size: 63 Copynumber: 2.3 Consensus size: 63
27614681 GCAAACACAT
* *
27614691 ATTCGAACCACATGTATGTATATATAATTCATAACATTAAGTTCAGCTAAAAAAATTTGTAACAT
1 ATTCGAACCACATG--TG--TATATAATTCATAACATTAAATTCAGCTAAAAAAATTTGAAACAT
27614756 AC
62 AC
** * * *
27614758 ATTCGAACGTCATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAA-TTGAAACATAC
1 ATTCGAACCACATGTGTATATAATTCATAACATTAAATTCAGCT-AAAAAAATTTGAAACATAC
27614821 ATTCGAACCACATGTGTATATA
1 ATTCGAACCACATGTGTATATA
27614843 TATTATACTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
63 55 0.75
64 6 0.08
65 1 0.01
67 11 0.15
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATGTGTATATAATTCATAACATTAAATTCAGCTAAAAAAATTTGAAACATAC
Found at i:27620906 original size:33 final size:32
Alignment explanation
Indices: 27620869--27620996 Score: 132
Period size: 33 Copynumber: 3.9 Consensus size: 32
27620859 CTCTAGCACA
*
27620869 CCAATGCTCAGAAGAGCTAATCCAACCAATAC
1 CCAATGCTCATAAGAGCTAATCCAACCAATAC
*
27620901 GCCAATGCTCATAAGAGTTAATCCAACCATCATA-
1 -CCAATGCTCATAAGAGCTAATCCAACCA--ATAC
* * **
27620935 CCAGTGCTCATAAGAGCTAATCCAACTACCAC
1 CCAATGCTCATAAGAGCTAATCCAACCAATAC
* * *
27620967 ACCAGTGTTCATAAGAGCTAGTCCAACCAA
1 -CCAATGCTCATAAGAGCTAATCCAACCAA
27620997 CAGACCAAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
31 1 0.01
33 76 0.95
35 3 0.04
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.20
Consensus pattern (32 bp):
CCAATGCTCATAAGAGCTAATCCAACCAATAC
Found at i:27620979 original size:66 final size:66
Alignment explanation
Indices: 27620868--27621004 Score: 166
Period size: 66 Copynumber: 2.1 Consensus size: 66
27620858 CCTCTAGCAC
* * *
27620868 ACCAATGCTCAGAAGAGCTAATCCAACCAATACGCCAATGCTCATAAGAGTTAATCCAACCATCA
1 ACCAATGCTCAGAAGAGCTAATCCAACCAACACACCAATGCTCATAAGAGCTAATCCAACCATCA
27620933 T
66 T
* * * * * * * *
27620934 ACCAGTGCTCATAAGAGCTAATCCAACTACCACACCAGTGTTCATAAGAGCTAGTCCAACCAACA
1 ACCAATGCTCAGAAGAGCTAATCCAACCAACACACCAATGCTCATAAGAGCTAATCCAACCATCA
*
27620999 G
66 T
27621000 ACCAA
1 ACCAA
27621005 ACAGAAAGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.39, C:0.30, G:0.13, T:0.18
Consensus pattern (66 bp):
ACCAATGCTCAGAAGAGCTAATCCAACCAACACACCAATGCTCATAAGAGCTAATCCAACCATCA
T
Found at i:27621960 original size:5 final size:5
Alignment explanation
Indices: 27621950--27621977 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27621940 AAGCATTTTG
27621950 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
27621978 GACTAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:27625090 original size:25 final size:27
Alignment explanation
Indices: 27625057--27625119 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
27625047 ATAAACCTAT
*
27625057 ATATATTATATA-ATAA-AACCCACGC
1 ATATATTATATATACAACAACCCACGC
*
27625082 ATATATTATATATACAACAACCCACTC
1 ATATATTATATATACAACAACCCACGC
*
27625109 AAATA-TATATA
1 ATATATTATATA
27625120 CTATATAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.36
26 9 0.27
27 12 0.36
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (27 bp):
ATATATTATATATACAACAACCCACGC
Found at i:27629729 original size:22 final size:19
Alignment explanation
Indices: 27629688--27629730 Score: 50
Period size: 22 Copynumber: 2.1 Consensus size: 19
27629678 CCATTGTGGA
*
27629688 TAAATTGATGAATTAGGCT
1 TAAATTGATGAATTAAGCT
27629707 TAAATTTGATAGATATTAAGCT
1 TAAA-TTGAT-GA-ATTAAGCT
27629729 TA
1 TA
27629731 GATCATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 2 0.10
22 9 0.45
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (19 bp):
TAAATTGATGAATTAAGCT
Found at i:27659855 original size:22 final size:23
Alignment explanation
Indices: 27659811--27659855 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27659801 TTCAAGGATA
*
27659811 TGCAATCTTAGAAGATATGATTT
1 TGCAATCTTAGAAGATATAATTT
*
27659834 TGCAATCTTAG-AGATTTAATTT
1 TGCAATCTTAGAAGATATAATTT
27659856 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (23 bp):
TGCAATCTTAGAAGATATAATTT
Found at i:27660417 original size:25 final size:25
Alignment explanation
Indices: 27660389--27660445 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
27660379 ATACGTTTGC
27660389 TTATATATATTTTA-TACATAAGCTT
1 TTATATATATTTTACTACATAA-CTT
* * * *
27660414 TTATTTTTATTTTACTTCCTAACTT
1 TTATATATATTTTACTACATAACTT
27660439 TTATATA
1 TTATATA
27660446 CTTATATCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATATATATTTTACTACATAACTT
Found at i:27661980 original size:21 final size:22
Alignment explanation
Indices: 27661954--27661995 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27661944 TAAAAGCAAC
27661954 AAAATGAGATA-ATT-AAATAAA
1 AAAATGA-ATAGATTGAAATAAA
27661975 AAAATGAATAGATTGAAATAA
1 AAAATGAATAGATTGAAATAA
27661996 GGATCAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 10 0.53
22 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (22 bp):
AAAATGAATAGATTGAAATAAA
Found at i:27662793 original size:15 final size:16
Alignment explanation
Indices: 27662761--27662793 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
27662751 TTTTATAATC
27662761 AAAAATACAGAAAGAA
1 AAAAATACAGAAAGAA
27662777 AAAAAT-CA-AAAGAA
1 AAAAATACAGAAAGAA
27662791 AAA
1 AAA
27662794 TCAAGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAATACAGAAAGAA
Found at i:27663097 original size:26 final size:22
Alignment explanation
Indices: 27663060--27663121 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 22
27663050 ATTGGGCTGA
*
27663060 TTAGGTTAGGGCTAGGCTTAATGGGT
1 TTAGGTTTGGGCTAGG-TTAAT---T
27663086 TTAGGTTTGGGCTAGGTTAATT
1 TTAGGTTTGGGCTAGGTTAATT
*
27663108 TTGGGTTTGGGCTA
1 TTAGGTTTGGGCTA
27663122 ACTGGGCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 14 0.41
25 5 0.15
26 15 0.44
ACGTcount: A:0.16, C:0.06, G:0.37, T:0.40
Consensus pattern (22 bp):
TTAGGTTTGGGCTAGGTTAATT
Found at i:27663561 original size:44 final size:44
Alignment explanation
Indices: 27663501--27663584 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
27663491 AAGATCCATT
* * *
27663501 ACTTTAATCCGTTCCACCACAACCTCGGGGAGATAGGATTATCG
1 ACTTTAATCCGCTCCACCACAACCTCAGGGAGATAAGATTATCG
* ***
27663545 ACTTTAATCTGCTCCACTGTAACCTCAGGGAGATAAGATT
1 ACTTTAATCCGCTCCACCACAACCTCAGGGAGATAAGATT
27663585 TTTTTTCTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
ACTTTAATCCGCTCCACCACAACCTCAGGGAGATAAGATTATCG
Found at i:27663897 original size:131 final size:131
Alignment explanation
Indices: 27663742--27664164 Score: 625
Period size: 131 Copynumber: 3.2 Consensus size: 131
27663732 CCTTACACTT
* * * *
27663742 GAAGATAAGATTCACCGTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAATATCTGTAGTTTC
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTC
*
27663807 CAACCTATTCCACTGCTGGTCAAGGACATAGGACTTACGGCTTAAATCTGTTTCCCTACTCCTAG
66 CAACCTATTCCACTGCTGGTCAAGGACATAGGACTTATGGCTTAAATCTGTTTCCCTACTCCTAG
27663872 G
131 G
* ** * *
27663873 GAAGGTAAGATTTTCCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATTTC
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTC
* * * *
27663938 CAACCTATTCCAATGCTGGTCAGGGACATAGGAC-TAGTGGCTTAAATCAGTTTCCCTACTCCTG
66 CAACCTATTCCACTGCTGGTCAAGGACATAGGACTTA-TGGCTTAAATCTGTTTCCCTACTCCTA
27664002 GG
130 GG
* *
27664004 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGGGACAAGATCTATAATTTC
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTC
* * * * *
27664069 CAACCTACTCCACTGCTGGTCATGAACATAGGACTTATGGCTTAAATCTGTTTCCCTACT-ATTG
66 CAACCTATTCCACTGCTGGTCAAGGACATAGGACTTATGGCTTAAATCTGTTTCCCTACTCCTAG
27664133 G
131 G
27664134 GTAAGATAAGATTCGCCGTCTTCGATCTGCT
1 G-AAGATAAGATTCGCCGTCTTCGATCTGCT
27664165 TCACTGTCGA
Statistics
Matches: 262, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
130 6 0.02
131 254 0.97
132 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (131 bp):
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTC
CAACCTATTCCACTGCTGGTCAAGGACATAGGACTTATGGCTTAAATCTGTTTCCCTACTCCTAG
G
Found at i:27664274 original size:43 final size:43
Alignment explanation
Indices: 27664226--27664362 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 43
27664216 CAACCGATGG
27664226 AGGCAAGGCTTTATTTTTGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTATTTTTGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * * *
27664269 AGGCAAGATCTGTTATCTTTAACCAGCTCCACTG-CAA--CCGATA
1 AGGCAAG-GCT-TTATTTTTGATCTGCTTCGCTGTCAATGCAG-GA
* * *
27664312 GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGAAGGA
1 -AGGCAAGGCTTTATTTTTGATCTGCTTCGCTGTCAATGCAGGA
27664356 AGGCAAG
1 AGGCAAG
27664363 ATCTGTTATC
Statistics
Matches: 66, Mismatches: 21, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
42 16 0.24
43 20 0.30
44 13 0.20
45 17 0.26
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTATTTTTGATCTGCTTCGCTGTCAATGCAGGA
Found at i:27664307 original size:87 final size:87
Alignment explanation
Indices: 27664154--27664509 Score: 541
Period size: 87 Copynumber: 4.1 Consensus size: 87
27664144 ATTCGCCGTC
* * * * * *
27664154 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATTTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
27664219 CCGATGGAGGCAAGGCTTTATT
66 CCGATAGAGGCAAGGCTTTGTT
* *
27664241 TTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
27664306 CCGATAGAGGCAAGGCTTTGTT
66 CCGATAGAGGCAAGGCTTTGTT
* * *
27664328 TTCGATCTGCTTCGCTGTCAATGAAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCAATGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
27664393 CCGATGGAGGTAAGGCTTTGTT
66 CCGATAGAGGCAAGGCTTTGTT
* * *
27664415 TTCGATCTACTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
27664480 CCGATAGAGGCAAGGCTTTGTT
66 CCGATAGAGGCAAGGCTTTGTT
*
27664502 TTCAATCT
1 TTCGATCT
27664510 TCACTGATCT
Statistics
Matches: 246, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 246 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATAGAGGCAAGGCTTTGTT
Found at i:27672065 original size:15 final size:16
Alignment explanation
Indices: 27672033--27672065 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
27672023 TTTTATAGCC
27672033 AAAAATACAGAAAGAA
1 AAAAATACAGAAAGAA
27672049 AAAAAT-CA-AAAGAA
1 AAAAATACAGAAAGAA
27672063 AAA
1 AAA
27672066 TCAAGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAATACAGAAAGAA
Found at i:27673203 original size:28 final size:28
Alignment explanation
Indices: 27673149--27673203 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
27673139 GGCGACTCCC
*
27673149 AATTTTTGTTTTTTTAAAAGTCGACAACT
1 AATTTTTGTTTTTTTAAAAATC-ACAACT
27673178 AATTTTTGTTTTTTTCAAAAAT-ACAA
1 AATTTTTGTTTTTTT-AAAAATCACAA
27673204 ATGGTTTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 4 0.17
29 15 0.62
30 5 0.21
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (28 bp):
AATTTTTGTTTTTTTAAAAATCACAACT
Found at i:27680407 original size:15 final size:16
Alignment explanation
Indices: 27680389--27680418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27680379 TTGGTTTAGG
27680389 ATTT-TTAGGGTTTTT
1 ATTTCTTAGGGTTTTT
27680404 ATTTCTTAGGGTTTT
1 ATTTCTTAGGGTTTT
27680419 AAAGGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.03, G:0.20, T:0.63
Consensus pattern (16 bp):
ATTTCTTAGGGTTTTT
Found at i:27683700 original size:24 final size:24
Alignment explanation
Indices: 27683673--27683739 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
27683663 GATTATCTTC
*
27683673 TTCATCTTCACCTCGA-CCTCTGTA
1 TTCATCTTCAACTCGACCCTC-GTA
* * *
27683697 TTCATCATCAACTTGACCCTCGTC
1 TTCATCTTCAACTCGACCCTCGTA
* *
27683721 TTCATCTTCATCTCCACCC
1 TTCATCTTCAACTCGACCC
27683740 CCGTCTCTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.18, C:0.40, G:0.06, T:0.36
Consensus pattern (24 bp):
TTCATCTTCAACTCGACCCTCGTA
Found at i:27683744 original size:24 final size:24
Alignment explanation
Indices: 27683671--27683759 Score: 63
Period size: 24 Copynumber: 3.7 Consensus size: 24
27683661 ATGATTATCT
* * * *
27683671 TCTTCATCTTCACCTCGACCTCTG
1 TCTTCATCTTCATCTCCACCCCCG
* * * ** *
27683695 TATTCATCATCAACTTGACCCTCG
1 TCTTCATCTTCATCTCCACCCCCG
27683719 TCTTCATCTTCATCTCCACCCCCG
1 TCTTCATCTTCATCTCCACCCCCG
*
27683743 TC-TCTGTCTTCATCTCC
1 TCTTC-ATCTTCATCTCC
27683760 TTCTTTCGTT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 2 0.04
24 48 0.96
ACGTcount: A:0.15, C:0.42, G:0.07, T:0.37
Consensus pattern (24 bp):
TCTTCATCTTCATCTCCACCCCCG
Found at i:27685147 original size:88 final size:88
Alignment explanation
Indices: 27685054--27685226 Score: 301
Period size: 88 Copynumber: 2.0 Consensus size: 88
27685044 TTAATTGTAT
**
27685054 ATATTTTACTGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAC
1 ATATTTTACCAAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAC
27685119 ATGAAAATTAATATTCTTTTGAA
66 ATGAAAATTAATATTCTTTTGAA
* *
27685142 ATATTTTACCAAATTTATTAATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAT
1 ATATTTTACCAAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAC
*
27685207 ATGGAAATTAATATTCTTTT
66 ATGAAAATTAATATTCTTTT
27685227 TGGAAAGAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (88 bp):
ATATTTTACCAAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGAC
ATGAAAATTAATATTCTTTTGAA
Found at i:27687911 original size:5 final size:5
Alignment explanation
Indices: 27687895--27687938 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
27687885 GTAGTACATT
* * *
27687895 TCATA TCTTA TCATA TCATA TCATA ACATA ACATA TCATA TCAT
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCAT
27687939 GTCCTACCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
TCATA
Found at i:27693698 original size:23 final size:24
Alignment explanation
Indices: 27693654--27693698 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
27693644 AAAATCCTTG
*
27693654 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
27693678 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
27693699 GGGAGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:27695253 original size:25 final size:25
Alignment explanation
Indices: 27695225--27695274 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27695215 AAGAAAGAAA
27695225 CGGAAGGGGAAACATAATGGAAATT
1 CGGAAGGGGAAACATAATGGAAATT
27695250 CGGAAGGGGAAACATAATGGAAATT
1 CGGAAGGGGAAACATAATGGAAATT
27695275 TTGGCAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (25 bp):
CGGAAGGGGAAACATAATGGAAATT
Found at i:27700561 original size:26 final size:26
Alignment explanation
Indices: 27700532--27700616 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
27700522 TACCTACACT
27700532 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
27700558 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
27700584 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
*
27700610 AATTTCA
1 AGTTTCA
27700617 AATCACTTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:27700572 original size:14 final size:14
Alignment explanation
Indices: 27700532--27700598 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
27700522 TACCTACACT
27700532 AGTTTCAGAATATC
1 AGTTTCAGAATATC
** *
27700546 A-TAACA-TATATC
1 AGTTTCAGAATATC
27700558 AGTTTCAGAATATC
1 AGTTTCAGAATATC
** *
27700572 A-TAACA-TATATC
1 AGTTTCAGAATATC
27700584 AGTTTCAGAATATC
1 AGTTTCAGAATATC
27700598 A
1 A
27700599 TAGCATGTAT
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
12 12 0.32
13 12 0.32
14 13 0.35
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (14 bp):
AGTTTCAGAATATC
Found at i:27705708 original size:5 final size:5
Alignment explanation
Indices: 27705692--27705750 Score: 82
Period size: 5 Copynumber: 11.4 Consensus size: 5
27705682 GTATTACGTT
* *
27705692 TCATA TCTTA TCATA TCATCTC TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCA--TA TCATA TCATA TCATA TCATA TCATA TCATA
27705744 TCATA TC
1 TCATA TC
27705751 CTTCCTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 44 0.92
7 4 0.08
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (5 bp):
TCATA
Found at i:27711137 original size:18 final size:18
Alignment explanation
Indices: 27711114--27711148 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27711104 GCACTAACAT
*
27711114 AAAAATGTAATGACAATA
1 AAAAATGCAATGACAATA
27711132 AAAAATGCAATGACAAT
1 AAAAATGCAATGACAAT
27711149 GTATGCTTAT
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:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAAATGCAATGACAATA
Found at i:27711633 original size:21 final size:22
Alignment explanation
Indices: 27711602--27711652 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
27711592 TTTTTAGTAA
* * *
27711602 TTTCTTCTTCTTCAGCAATAAC
1 TTTCCTCTTCTACAGCAACAAC
27711624 -TTCCTCTTCTACAGCAACAAC
1 TTTCCTCTTCTACAGCAACAAC
27711645 TTTCCTCT
1 TTTCCTCT
27711653 CAACAACAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.41
Consensus pattern (22 bp):
TTTCCTCTTCTACAGCAACAAC
Found at i:27725241 original size:17 final size:17
Alignment explanation
Indices: 27725221--27725255 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27725211 AATAGAATAA
27725221 TTTAAAAAATTTAAAAT
1 TTTAAAAAATTTAAAAT
*
27725238 TTTAAAAACTTTAAAAT
1 TTTAAAAAATTTAAAAT
27725255 T
1 T
27725256 AACTGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAAAAATTTAAAAT
Found at i:27730093 original size:59 final size:60
Alignment explanation
Indices: 27730000--27730113 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 60
27729990 CTCCAAGGAT
* **
27730000 TAACTTGGACAAAAAAAAAGGTCAAGTCCCAATGTGGGAATAATTGTCAAGTTCAGGGTC
1 TAACTTGGACAAAAAAAAAGGTCAAGCCCCAATGTGGGAATAATTACCAAGTTCAGGGTC
*
27730060 TAACTTGGA-TAAAAAAAA-GTCCAAGCCCCAATGTGGGAATAATTACCAAGTTCA
1 TAACTTGGACAAAAAAAAAGGT-CAAGCCCCAATGTGGGAATAATTACCAAGTTCA
27730114 AGGCCTAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 2 0.04
59 38 0.78
60 9 0.18
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (60 bp):
TAACTTGGACAAAAAAAAAGGTCAAGCCCCAATGTGGGAATAATTACCAAGTTCAGGGTC
Found at i:27730130 original size:59 final size:59
Alignment explanation
Indices: 27730011--27730130 Score: 152
Period size: 59 Copynumber: 2.0 Consensus size: 59
27730001 AACTTGGACA
* ** * * *
27730011 AAAAAAAAGGTCAAGTCCCAATGTGGGAATAATTGTCAAGTTCAGGGTCTAACTTGGAT
1 AAAAAAAAGGTCAAGCCCCAATGTGGGAATAATTACCAAGTTCAAGGCCTAACTTAGAT
**
27730070 AAAAAAAA-GTCCAAGCCCCAATGTGGGAATAATTACCAAGTTCAAGGCCTAGTTTAGAT
1 AAAAAAAAGGT-CAAGCCCCAATGTGGGAATAATTACCAAGTTCAAGGCCTAACTTAGAT
27730129 AA
1 AA
27730131 TAATAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 2 0.04
59 50 0.96
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (59 bp):
AAAAAAAAGGTCAAGCCCCAATGTGGGAATAATTACCAAGTTCAAGGCCTAACTTAGAT
Found at i:27730316 original size:20 final size:19
Alignment explanation
Indices: 27730275--27730313 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27730265 TGATATTTTC
*
27730275 TCATAATTTTAGGTATTCT
1 TCATAATTTTAGGTATACT
* *
27730294 TCATTATTTTTGGTATACT
1 TCATAATTTTAGGTATACT
27730313 T
1 T
27730314 TCAAAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TCATAATTTTAGGTATACT
Found at i:27734927 original size:50 final size:50
Alignment explanation
Indices: 27734810--27735042 Score: 191
Period size: 50 Copynumber: 4.6 Consensus size: 50
27734800 ATATGCCTAA
* ** * * *
27734810 GCCATGTCCCAGACATGGTATTACATGGGATGTTTCTTGTAC--TACCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGGTACCAAT
* ** ** *
27734859 GCCATATCCCAGGTATGGTCTTACATGGGAGTTCTCATATCGGTACCTAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAAT
* ** * ** *
27734909 GACATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGGCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAAT
* * *
27734959 GCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTACCAAT
27735015 GCCATGTCCCAGACATGGTCTTACATGG
1 GCCATGTCCCAGACATGGTCTTACATGG
27735043 AATCTTTTTA
Statistics
Matches: 144, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 31 0.22
50 77 0.53
53 2 0.01
56 33 0.23
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAAT
Found at i:27742424 original size:42 final size:42
Alignment explanation
Indices: 27742359--27742458 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
27742349 TTCTGAAAAA
* *
27742359 TCGCGTCCACGTCAGCGCGATGTCAGGGGACGCGCCAGCAAG
1 TCGCGGCCACGTCAGCGCGATGTCAGGGGACGCACCAGCAAG
* *
27742401 TCGTGGCCACGTCAGCGCGATGTCAGGGGACGCACTAGCAAG
1 TCGCGGCCACGTCAGCGCGATGTCAGGGGACGCACCAGCAAG
27742443 TCGCGGCCACGTCAGC
1 TCGCGGCCACGTCAGC
27742459 ACGCTTTACT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.13
Consensus pattern (42 bp):
TCGCGGCCACGTCAGCGCGATGTCAGGGGACGCACCAGCAAG
Found at i:27742686 original size:22 final size:23
Alignment explanation
Indices: 27742652--27742728 Score: 104
Period size: 22 Copynumber: 3.4 Consensus size: 23
27742642 AAACTAATCC
27742652 TCTCTCAAATTTCTTCTCAATTT
1 TCTCTCAAATTTCTTCTCAATTT
*
27742675 TCTCT-AAATTTCCTCTCAATTT
1 TCTCTCAAATTTCTTCTCAATTT
* * *
27742697 GCTCTCAAATTCCTTC-CAAATT
1 TCTCTCAAATTTCTTCTCAATTT
27742719 TCTCTCAAAT
1 TCTCTCAAAT
27742729 CCATATTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 34 0.72
23 13 0.28
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (23 bp):
TCTCTCAAATTTCTTCTCAATTT
Found at i:27742727 original size:11 final size:11
Alignment explanation
Indices: 27742652--27742728 Score: 79
Period size: 11 Copynumber: 6.9 Consensus size: 11
27742642 AAACTAATCC
27742652 TCTCTCAAATT
1 TCTCTCAAATT
*
27742663 TCTTCTCAATTT
1 TC-TCTCAAATT
27742675 TCTCT-AAATT
1 TCTCTCAAATT
27742685 TCCTCTC-AATT
1 T-CTCTCAAATT
27742696 TGCTCTCAAATT
1 T-CTCTCAAATT
*
27742708 CCT-TCCAAATT
1 TCTCT-CAAATT
27742719 TCTCTCAAAT
1 TCTCTCAAAT
27742729 CCATATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
10 6 0.11
11 34 0.62
12 15 0.27
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:27743260 original size:255 final size:255
Alignment explanation
Indices: 27742809--27743317 Score: 991
Period size: 255 Copynumber: 2.0 Consensus size: 255
27742799 TAAATTTTTT
27742809 TTTAAAAAAATTTTTAAACCGTAAAAATTTGTACGATTTCAGCAATGGCCGGAGATTTGACTCGT
1 TTTAAAAAAATTTTTAAACCGTAAAAATTTGTACGATTTCAGCAATGGCCGGAGATTTGACTCGT
27742874 CTTGATAAGCATCACATATCGGTGGAATAAATGAAAATGGTAAATGTTAAATTTAATTTTTAAAT
66 CTTGATAAGCATCACATATCGGTGGAATAAATGAAAATGGTAAATGTTAAATTTAATTTTTAAAT
27742939 ATTATTTAAGATTTTTTTATTTATGCATTTTTAGATAATTATTAATTTATTATTTGTTATAAAAG
131 ATTATTTAAGATTTTTTTATTTATGCATTTTTAGATAATTATTAATTTATTATTTGTTATAAAAG
27743004 TCTGTAGATCGGGTATTGGAATGCAATATCCGAAATATGCATGCTCCTCCATCACCGTTA
196 TCTGTAGATCGGGTATTGGAATGCAATATCCGAAATATGCATGCTCCTCCATCACCGTTA
27743064 TTTAAAAAAATTTTTAAACCGTAAAAATTTGTACGATTTCAGCAATGGCCGGAGATTTGACTCGT
1 TTTAAAAAAATTTTTAAACCGTAAAAATTTGTACGATTTCAGCAATGGCCGGAGATTTGACTCGT
27743129 CTTGATAAGCATCACATATCGGTGGAATAAATGAAAATGGTAAATGTTAAATTTAATTTTTAAAT
66 CTTGATAAGCATCACATATCGGTGGAATAAATGAAAATGGTAAATGTTAAATTTAATTTTTAAAT
27743194 ATTATTTAAGATTTTTTTATTTATGCATTTTTAGATAATTATTAATTTATTATTTGTTATAAAAG
131 ATTATTTAAGATTTTTTTATTTATGCATTTTTAGATAATTATTAATTTATTATTTGTTATAAAAG
* * *
27743259 TCTGTAGATCGGGTATTGGAATGCAATATCCGAAATATGCATGGTTCTCCATCATCGTT
196 TCTGTAGATCGGGTATTGGAATGCAATATCCGAAATATGCATGCTCCTCCATCACCGTT
27743318 GGTAGAGAAC
Statistics
Matches: 251, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 251 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (255 bp):
TTTAAAAAAATTTTTAAACCGTAAAAATTTGTACGATTTCAGCAATGGCCGGAGATTTGACTCGT
CTTGATAAGCATCACATATCGGTGGAATAAATGAAAATGGTAAATGTTAAATTTAATTTTTAAAT
ATTATTTAAGATTTTTTTATTTATGCATTTTTAGATAATTATTAATTTATTATTTGTTATAAAAG
TCTGTAGATCGGGTATTGGAATGCAATATCCGAAATATGCATGCTCCTCCATCACCGTTA
Found at i:27745185 original size:22 final size:22
Alignment explanation
Indices: 27745135--27745795 Score: 564
Period size: 23 Copynumber: 30.3 Consensus size: 22
27745125 TTGAGTTATT
27745135 ACTTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
*
27745158 AATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
**
27745180 ACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
*
27745204 AC-TAAAAACCCTAAATCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
* *
27745226 AATTAAAAACCATAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* *
27745248 ACTTAAAAA-CCTTAACTCTTA
1 ACTTAAAAACCCTAAACCCTTA
27745269 ACTTAAAAACCCT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
27745290 AATTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
27745312 ACTTAAAAACCCTAAA--C-TA
1 ACTTAAAAACCCTAAACCCTTA
* *
27745331 ATTTAAAAACCCTAAACCCTAA
1 ACTTAAAAACCCTAAACCCTTA
27745353 ACCTT--AAACCCT-AACCCTTA
1 A-CTTAAAAACCCTAAACCCTTA
**
27745373 ACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
*
27745397 A-TTAAAAACCCTAAACCTTTAA
1 ACTTAAAAACCCTAAACCCTT-A
* **
27745419 ACCTAAAAACCCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
27745443 A-TTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* **
27745464 ACTTATAAACCCT-AACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
27745487 A-TTAAAAACCCTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
27745508 ACTTAAAAACCCT-AACCCTCA
1 ACTTAAAAACCCTAAACCCTTA
* *
27745529 ACTTAAAAA-CTTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
27745550 ACTTAAAAACACC--AACCCTTA
1 ACTTAAAAAC-CCTAAACCCTTA
*
27745571 AATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAACCCTAAACCCTT-A
* * *
27745594 AATTAAAAATCTTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* **
27745616 ACTTAAAAACTCTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
*
27745640 A-TTAAAAACTCTAAACCC-TA
1 ACTTAAAAACCCTAAACCCTTA
* *
27745660 ACCCT--AAA-CCTTAACCCTTA
1 A-CTTAAAAACCCTAAACCCTTA
* **
27745680 ACTTAAAAACCTTAAACTAATTTA
1 ACTTAAAAACCCTAAAC--CCTTA
*
27745704 A-TTAAAAACCTTAAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
*
27745725 ACTTAAAAACCCTTAACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
* * ** *
27745747 ATTTTAAAACTTTAAA--CTAGA
1 ACTTAAAAACCCTAAACCCT-TA
*
27745768 ACTTAAAAACCGT-AACCCTTA
1 ACTTAAAAACCCTAAACCCTTA
27745789 ACTTAAA
1 ACTTAAA
27745796 TTTATTTGAT
Statistics
Matches: 521, Mismatches: 73, Indels: 90
0.76 0.11 0.13
Matches are distributed among these distances:
19 29 0.06
20 26 0.05
21 142 0.27
22 150 0.29
23 152 0.29
24 19 0.04
25 3 0.01
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
ACTTAAAAACCCTAAACCCTTA
Found at i:27745268 original size:21 final size:21
Alignment explanation
Indices: 27745135--27745795 Score: 362
Period size: 21 Copynumber: 30.3 Consensus size: 21
27745125 TTGAGTTATT
*
27745135 ACTTAAAAACCCTAAACCCTTAA
1 ACTTAAAAA-CCTTAACCCTT-A
* *
27745158 AATTAAAAACCCTAAACCCTTA
1 ACTTAAAAA-CCTTAACCCTTA
* **
27745180 ACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAA-CCTTAAC--CCTTA
* *
27745204 AC-TAAAAACCCTAAATCCTTAA
1 ACTTAAAAA-CCTTAACCCTT-A
* *
27745226 AATTAAAAACCATAAACCCTTA
1 ACTTAAAAACC-TTAACCCTTA
*
27745248 ACTTAAAAACCTTAACTCTTA
1 ACTTAAAAACCTTAACCCTTA
*
27745269 ACTTAAAAACCCTAACCCTTA
1 ACTTAAAAACCTTAACCCTTA
* *
27745290 AATTAAAAACCCTAAACCCTTA
1 ACTTAAAAA-CCTTAACCCTTA
* *
27745312 ACTTAAAAACCCTAA-AC-TA
1 ACTTAAAAACCTTAACCCTTA
* * *
27745331 ATTTAAAAACCCTAAACCCTAA
1 ACTTAAAAA-CCTTAACCCTTA
*
27745353 ACCTT--AAACCCTAACCCTTA
1 A-CTTAAAAACCTTAACCCTTA
* **
27745373 ACTTAAAAACCCTAAACTAATTTA
1 ACTTAAAAA-CCTTAAC--CCTTA
* *
27745397 A-TTAAAAACCCTAAACCTTTAA
1 ACTTAAAAA-CCTTAACCCTT-A
* * **
27745419 ACCTAAAAACCCTAAACTAATTTA
1 ACTTAAAAA-CCTTAAC--CCTTA
*
27745443 A-TTAAAAACCCTAAACCCTTA
1 ACTTAAAAA-CCTTAACCCTTA
* * **
27745464 ACTTATAAACCCTAACTAATTTA
1 ACTTAAAAACCTTAAC--CCTTA
*
27745487 A-TTAAAAACCCTAAACCCTTA
1 ACTTAAAAA-CCTTAACCCTTA
* *
27745508 ACTTAAAAACCCTAACCCTCA
1 ACTTAAAAACCTTAACCCTTA
*
27745529 ACTTAAAAACTTTAACCCTTA
1 ACTTAAAAACCTTAACCCTTA
*
27745550 ACTTAAAAACAC-CAACCCTTA
1 ACTTAAAAAC-CTTAACCCTTA
* *
27745571 AATTAAAAACCCTAAACCCTTAA
1 ACTTAAAAA-CCTTAACCCTT-A
* *
27745594 AATTAAAAATCTTAAACCCTTA
1 ACTTAAAAACCTT-AACCCTTA
* **
27745616 ACTTAAAAACTCTAAACTAATTTA
1 ACTTAAAAAC-CTTAAC--CCTTA
*
27745640 A-TTAAAAACTCTAAACCC-TA
1 ACTTAAAAAC-CTTAACCCTTA
*
27745660 ACCCT--AAACCTTAACCCTTA
1 A-CTTAAAAACCTTAACCCTTA
**
27745680 ACTTAAAAACCTTAAACTAATTTA
1 ACTTAAAAACCTT-AAC--CCTTA
27745704 A-TTAAAAACCTTAAACCCTTA
1 ACTTAAAAACCTT-AACCCTTA
27745725 ACTTAAAAACCCTTAACCCTTA
1 ACTTAAAAA-CCTTAACCCTTA
* * * * *
27745747 ATTTTAAAACTTTAA-ACTAGA
1 ACTTAAAAACCTTAACCCT-TA
*
27745768 ACTTAAAAACCGTAACCCTTA
1 ACTTAAAAACCTTAACCCTTA
27745789 ACTTAAA
1 ACTTAAA
27745796 TTTATTTGAT
Statistics
Matches: 507, Mismatches: 87, Indels: 90
0.74 0.13 0.13
Matches are distributed among these distances:
19 22 0.04
20 27 0.05
21 154 0.30
22 128 0.25
23 154 0.30
24 19 0.04
25 3 0.01
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
ACTTAAAAACCTTAACCCTTA
Found at i:27745389 original size:7 final size:7
Alignment explanation
Indices: 27745337--27745370 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
27745327 ACTAATTTAA
27745337 AAACCCT
1 AAACCCT
27745344 AAACCCT
1 AAACCCT
*
27745351 AAACCTT
1 AAACCCT
27745358 AAACCCT
1 AAACCCT
27745365 -AACCCT
1 AAACCCT
27745371 TAACTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Done.