Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 61 of 117
Found at i:11323035 original size:41 final size:41
Alignment explanation
Indices: 11322989--11323119 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 41
11322979 TTATACTTAC
*
11322989 TATTATAATAATAGATGACGTTTACTTTTTCAAATGTTATT
1 TATTATAATAATAGATGACATTTACTTTTTCAAATGTTATT
* * * *
11323030 TATTATGATAAAAGATAACATTTACTTTTTTAAAATGTCT-TT
1 TATTATAATAATAGATGACATTTAC-TTTTTCAAATGT-TATT
* * * *
11323072 TATTATGATAATAGATGACATTTACTTTCTCAAATGTAATC
1 TATTATAATAATAGATGACATTTACTTTTTCAAATGTTATT
11323113 TATTATA
1 TATTATA
11323120 GATATAATTA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 38 0.51
42 36 0.48
43 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (41 bp):
TATTATAATAATAGATGACATTTACTTTTTCAAATGTTATT
Found at i:11323074 original size:42 final size:42
Alignment explanation
Indices: 11322989--11323099 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
11322979 TTATACTTAC
* * *
11322989 TATTATAATAATAGATGACGTTTAC-TTTTTCAAATGTTATT
1 TATTATGATAATAGATGACATTTACTTTTTTAAAATGTTATT
* *
11323030 TATTATGATAAAAGATAACATTTACTTTTTTAAAATGTCT-TT
1 TATTATGATAATAGATGACATTTACTTTTTTAAAATGT-TATT
11323072 TATTATGATAATAGATGACATTTACTTT
1 TATTATGATAATAGATGACATTTACTTT
11323100 CTCAAATGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 21 0.34
42 39 0.64
43 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (42 bp):
TATTATGATAATAGATGACATTTACTTTTTTAAAATGTTATT
Found at i:11323544 original size:44 final size:47
Alignment explanation
Indices: 11323454--11323547 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
11323444 TTTTATTATG
*
11323454 ATAATAGGTGATGTTTACTTTTTCAAATGTCATCTATTATAATAATA
1 ATAATAGATGATGTTTACTTTTTCAAATGTCATCTATTATAATAATA
*
11323501 ATAATAGATGATGTTTACTTTTTCAAATTTCATCTATTATAATAATA
1 ATAATAGATGATGTTTACTTTTTCAAATGTCATCTATTATAATAATA
11323548 GACAACATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (47 bp):
ATAATAGATGATGTTTACTTTTTCAAATGTCATCTATTATAATAATA
Found at i:11324053 original size:14 final size:14
Alignment explanation
Indices: 11324034--11324063 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11324024 GGTATCAAAG
11324034 CGAGGTTCAAGGTT
1 CGAGGTTCAAGGTT
*
11324048 CGAGGTTTAAGGTT
1 CGAGGTTCAAGGTT
11324062 CG
1 CG
11324064 CGGGTCCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.37, T:0.30
Consensus pattern (14 bp):
CGAGGTTCAAGGTT
Found at i:11328540 original size:3 final size:3
Alignment explanation
Indices: 11328528--11328614 Score: 124
Period size: 3 Copynumber: 29.3 Consensus size: 3
11328518 TATTGTGACC
* * *
11328528 TAT TAG TAT TAT TAT TA- TATT TAT CAT TAT T-C TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
11328572 TAT 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 T
11328615 GTTTGTTTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
2 3 0.04
3 70 0.93
4 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11329491 original size:18 final size:18
Alignment explanation
Indices: 11329468--11329508 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11329458 CAAGGTTTCC
*
11329468 TTTTCC-ATTTTCGTTCTA
1 TTTTCCAATTTTCATT-TA
11329486 TTTTCCAATTTTCATTTA
1 TTTTCCAATTTTCATTTA
11329504 TTTTC
1 TTTTC
11329509 ATAATTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.15, C:0.20, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTCCAATTTTCATTTA
Found at i:11329498 original size:19 final size:18
Alignment explanation
Indices: 11329468--11329528 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
11329458 CAAGGTTTCC
11329468 TTTTCC-ATTTTCGTTCTA
1 TTTTCCAATTTTCGTT-TA
*
11329486 TTTTCCAATTTTCATTTA
1 TTTTCCAATTTTCGTTTA
* *
11329504 TTTTCATAATTTTTGTTTTA
1 TTTTC-CAATTTTCG-TTTA
11329524 TTTTC
1 TTTTC
11329529 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.36
19 14 0.39
20 9 0.25
ACGTcount: A:0.16, C:0.15, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTCCAATTTTCGTTTA
Found at i:11329523 original size:20 final size:19
Alignment explanation
Indices: 11329484--11329542 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
11329474 ATTTTCGTTC
* *
11329484 TATTTTCCAATTTTCA-TT
1 TATTTTCTAATTTTTATTT
*
11329502 TATTTTCATAATTTTTGTTT
1 TATTTTC-TAATTTTTATTT
*
11329522 TATTTTCTATTTTTTATTT
1 TATTTTCTAATTTTTATTT
11329541 TA
1 TA
11329543 GTAATTCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 7 0.21
19 18 0.53
20 9 0.26
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTTCTAATTTTTATTT
Found at i:11329535 original size:18 final size:18
Alignment explanation
Indices: 11329468--11329535 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
11329458 CAAGGTTTCC
* *
11329468 TTTTCCATTTTCGTTCTA
1 TTTTCCATTTTTGTTTTA
* **
11329486 TTTTCCAATTTTCATTTA
1 TTTTCCATTTTTGTTTTA
*
11329504 TTTTCATAATTTTTGTTTTA
1 TTTTC--CATTTTTGTTTTA
*
11329524 TTTTCTATTTTT
1 TTTTCCATTTTT
11329536 TATTTTAGTA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
18 24 0.63
20 14 0.37
ACGTcount: A:0.16, C:0.13, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTCCATTTTTGTTTTA
Found at i:11330401 original size:46 final size:46
Alignment explanation
Indices: 11330351--11330450 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
11330341 TAAATTTGAG
*
11330351 ATTTTTTACTTCCTTTCATTGCTTACACTTGCTTAATTATTTATTT
1 ATTTTTTACTTCCTTTCATTACTTACACTTGCTTAATTATTTATTT
** * * *
11330397 ATTTTTTACTTGTTTTCATTATTTATACTTTCTTAATTATTTATTT
1 ATTTTTTACTTCCTTTCATTACTTACACTTGCTTAATTATTTATTT
11330443 ATTTTTTA
1 ATTTTTTA
11330451 TATATCTATC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (46 bp):
ATTTTTTACTTCCTTTCATTACTTACACTTGCTTAATTATTTATTT
Found at i:11330854 original size:12 final size:12
Alignment explanation
Indices: 11330839--11330871 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11330829 GACTAACTAA
11330839 TTTTTTTGTCTT
1 TTTTTTTGTCTT
11330851 TTTTTATT-TCTT
1 TTTTT-TTGTCTT
11330863 TTTTTTTGT
1 TTTTTTTGT
11330872 ACATATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTTTGTCTT
Found at i:11338466 original size:17 final size:17
Alignment explanation
Indices: 11338444--11338479 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11338434 ACACCACCTT
11338444 GGCCATTTTGTATATAA
1 GGCCATTTTGTATATAA
*
11338461 GGCCATTTTTTATATAA
1 GGCCATTTTGTATATAA
11338478 GG
1 GG
11338480 GATGGATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (17 bp):
GGCCATTTTGTATATAA
Found at i:11339422 original size:55 final size:53
Alignment explanation
Indices: 11339323--11339426 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 53
11339313 ACTTTGCTTT
* * * *
11339323 AAAAAAAAAAGAAAAAGTTCAAGTTGCAAACTCGAAAAGCCAGCTTGAACAAA
1 AAAAAAAAAAAAAAAAGTTCAAGTTGAAAACCCAAAAAGCCAGCTTGAACAAA
11339376 AAAAAAAAAAAAAAAAGAATTCAAGTTGAAAACCCAAAAAAG-CAGCTTGAA
1 AAAAAAAAAAAAAAAAG--TTCAAGTTGAAAACCC-AAAAAGCCAGCTTGAA
11339427 TCGAATGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
53 16 0.36
55 23 0.52
56 5 0.11
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.12
Consensus pattern (53 bp):
AAAAAAAAAAAAAAAAGTTCAAGTTGAAAACCCAAAAAGCCAGCTTGAACAAA
Found at i:11340373 original size:114 final size:114
Alignment explanation
Indices: 11340250--11340460 Score: 271
Period size: 114 Copynumber: 1.9 Consensus size: 114
11340240 TCATCCCAAC
* * * *
11340250 CATTCGATCTCAACTCA-GGTCAGATCATTTTCAGACTTACGGCATCATTTCGATCACTCACTTG
1 CATTCGATCTCAACTCATGGT-AGATCATTTTCAGACTCACGACATCATCTCGATCACTCACTTA
* *
11340314 TGGCCTTGACTCAATCTTGGTCACTTTCAGACTTACGACTTCATCCTAGT
65 TGACCTCGACTCAATCTTGGTCACTTTCAGACTTACGACTTCATCCTAGT
* * * * *
11340364 CATTTGATCTCAGCTCATGGTAGATCATTTTTAGACTCATGACATCATCTCGATTACTCACTTAT
1 CATTCGATCTCAACTCATGGTAGATCATTTTCAGACTCACGACATCATCTCGATCACTCACTTAT
*** *
11340429 GACCTCGACTTGGTCTTGGTCACTTTTAGACT
66 GACCTCGACTCAATCTTGGTCACTTTCAGACT
11340461 CGCGACATTA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
114 78 0.96
115 3 0.04
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (114 bp):
CATTCGATCTCAACTCATGGTAGATCATTTTCAGACTCACGACATCATCTCGATCACTCACTTAT
GACCTCGACTCAATCTTGGTCACTTTCAGACTTACGACTTCATCCTAGT
Found at i:11340787 original size:3 final size:3
Alignment explanation
Indices: 11340779--11340901 Score: 128
Period size: 3 Copynumber: 41.3 Consensus size: 3
11340769 CTATTAGCAC
* * *
11340779 TAT TAT TA- TAT TTT TCAT TAT TATT TAT ATAA TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT
* * * *
11340826 TAC TAT TAT TA- TAC TAT TA- TAT TAT CAT TAT TGT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11340871 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11340902 GTTTTTTTCT
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
2 8 0.08
3 85 0.85
4 7 0.07
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11341406 original size:9 final size:9
Alignment explanation
Indices: 11341372--11341396 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11341362 ATTTTTCTAA
11341372 ATTTTTTGG
1 ATTTTTTGG
11341381 ATTTTTTGG
1 ATTTTTTGG
11341390 ATTTTTT
1 ATTTTTT
11341397 TTGGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (9 bp):
ATTTTTTGG
Found at i:11341824 original size:18 final size:18
Alignment explanation
Indices: 11341801--11341841 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11341791 CAAGGTTTCC
*
11341801 TTTTCC-ATTTTCATTTTA
1 TTTTCCAATTATCA-TTTA
11341819 TTTTCCAATTATCATTTA
1 TTTTCCAATTATCATTTA
11341837 TTTTC
1 TTTTC
11341842 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTCCAATTATCATTTA
Found at i:11342119 original size:51 final size:50
Alignment explanation
Indices: 11342032--11342148 Score: 198
Period size: 50 Copynumber: 2.3 Consensus size: 50
11342022 CATGAATTTT
* *
11342032 ACCAAACTATTGGAAAATTTTTTGGGTTTAATTTTTTTTAAATGAAATCC
1 ACCAAACTATTGGGAAAGTTTTTGGGTTTAATTTTTTTTAAATGAAATCC
* *
11342082 ACCAAACTATTGGGAAAGTTTTTGGGTTTAATTTTTTTTAATTGGAATCC
1 ACCAAACTATTGGGAAAGTTTTTGGGTTTAATTTTTTTTAAATGAAATCC
11342132 ACCAAACTATTGGGAAA
1 ACCAAACTATTGGGAAA
11342149 TTTCATAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (50 bp):
ACCAAACTATTGGGAAAGTTTTTGGGTTTAATTTTTTTTAAATGAAATCC
Found at i:11343265 original size:3 final size:3
Alignment explanation
Indices: 11343230--11343342 Score: 135
Period size: 3 Copynumber: 38.3 Consensus size: 3
11343220 GGAAGAAAGA
* * * *
11343230 AAT ATAT AAA AAT AAT AAA AAT AAT GAT GAT AAT AAT AAT -AT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11343275 AAG AAT AAT AGA- AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11343319 AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
11343343 CTATACACTA
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
2 7 0.07
3 85 0.89
4 4 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11344143 original size:69 final size:70
Alignment explanation
Indices: 11344034--11344169 Score: 177
Period size: 69 Copynumber: 2.0 Consensus size: 70
11344024 CAAACGTCTC
* * * * * *
11344034 AGGTTCAAAAGGACTTTTCAGATTTGTAGGACAGAAAGATTCGCAAGATTTTCAGTTTCGTAAAG
1 AGGTTCAAAAGGACTTTTCAAATTTGCAAGAAAGAAAGATTCGCAAGATTTTAAGTTTCGCAAAG
11344099 GTGCA
66 GTGCA
* *
11344104 AGGTTCACAAA-GAC-TTTCAAATTTGCAAGAAAGAAAGATTTGTAAGATTTTAAGTTTCGCAAA
1 AGGTTCA-AAAGGACTTTTCAAATTTGCAAGAAAGAAAGATTCGCAAGATTTTAAGTTTCGCAAA
11344167 GGT
65 GGT
11344170 TTTAGATTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
69 44 0.77
70 10 0.18
71 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (70 bp):
AGGTTCAAAAGGACTTTTCAAATTTGCAAGAAAGAAAGATTCGCAAGATTTTAAGTTTCGCAAAG
GTGCA
Found at i:11344190 original size:18 final size:18
Alignment explanation
Indices: 11344159--11344214 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
11344149 GATTTTAAGT
*
11344159 TTCGCAAAG-GTTTTAGA
1 TTCGCAAAGACTTTTAGA
11344176 TTCGCAAAGACTTTTAGA
1 TTCGCAAAGACTTTTAGA
*
11344194 TTCACAAAGACTTTTAGA
1 TTCGCAAAGACTTTTAGA
11344212 TTC
1 TTC
11344215 ACAAGAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 9 0.25
18 27 0.75
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TTCGCAAAGACTTTTAGA
Found at i:11344191 original size:36 final size:35
Alignment explanation
Indices: 11344147--11344214 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
11344137 AAAGATTTGT
* * *
11344147 AAGATTTTAAGTTTCGCAAAG-GTTTTAGATTCGCA
1 AAGATTTT-AGATTCACAAAGACTTTTAGATTCGCA
11344182 AAGACTTTTAGATTCACAAAGACTTTTAGATTC
1 AAGA-TTTTAGATTCACAAAGACTTTTAGATTC
11344215 ACAAGAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 14 0.50
36 14 0.50
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (35 bp):
AAGATTTTAGATTCACAAAGACTTTTAGATTCGCA
Found at i:11344215 original size:18 final size:18
Alignment explanation
Indices: 11344169--11344218 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
11344159 TTCGCAAAGG
*
11344169 TTTTAGATTCGCAAAGAC
1 TTTTAGATTCACAAAGAC
11344187 TTTTAGATTCACAAAGAC
1 TTTTAGATTCACAAAGAC
11344205 TTTTAGATTCACAA
1 TTTTAGATTCACAA
11344219 GAAAGAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
TTTTAGATTCACAAAGAC
Found at i:11344255 original size:87 final size:87
Alignment explanation
Indices: 11344107--11344352 Score: 249
Period size: 87 Copynumber: 2.7 Consensus size: 87
11344097 AGGTGCAAGG
* * * * * * *
11344107 TTCACAAAGACTTTCAAATTTGCAAGAAAGAAAGATTTGTAAGATTTTAAGTTTCGCAAAGGTTT
1 TTCACAAAGACTTTTAGATTCGCAAGAAAGAAAGATTCGTAAGATTTCAAGTTTCACAAAGGTTC
* * *
11344172 TAGATTCGCAAAGACTTTTAGA
66 AAGATTCACAAAGACTTTCAGA
* * * **
11344194 TTCACAAAGACTTTTAGATTCACAAGAAAGAAAGATTCATAAGATTTCAAGTTTCATAAAGGAGC
1 TTCACAAAGACTTTTAGATTCGCAAGAAAGAAAGATTCGTAAGATTTCAAGTTTCACAAAGGTTC
* *
11344259 AAGGTTCACAAGGACTTTCAGA
66 AAGATTCACAAAGACTTTCAGA
* *
11344281 TTCGCAAAGTTACAAGGACTTTTAGATTCGTAAGAAAGAAAGATTCGTAAGATTTCAAGTTTCAC
1 TT--C------ACAAAGACTTTTAGATTCGCAAGAAAGAAAGATTCGTAAGATTTCAAGTTTCAC
11344346 AAAGGTT
58 AAAGGTT
11344353 AAAAAAATTA
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
87 72 0.57
89 1 0.01
95 54 0.43
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (87 bp):
TTCACAAAGACTTTTAGATTCGCAAGAAAGAAAGATTCGTAAGATTTCAAGTTTCACAAAGGTTC
AAGATTCACAAAGACTTTCAGA
Found at i:11344295 original size:26 final size:27
Alignment explanation
Indices: 11344257--11344310 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
11344247 TCATAAAGGA
*
11344257 GCAAGGTTCACAAGGACTTTCAGATTC
1 GCAAAGTTCACAAGGACTTTCAGATTC
*
11344284 GCAAAGTT-ACAAGGACTTTTAGATTC
1 GCAAAGTTCACAAGGACTTTCAGATTC
11344310 G
1 G
11344311 TAAGAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
GCAAAGTTCACAAGGACTTTCAGATTC
Found at i:11345986 original size:37 final size:37
Alignment explanation
Indices: 11345914--11345987 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
11345904 TTGATTGTAA
*
11345914 AAAAAAAAAGGTCAATTAAAAATAAACTAATTAATTGT
1 AAAAAAAAA-GTCAATTAAAAATAAACTAAATAATTGT
11345952 AAAAAAAAA-TCAATTAAAAATAAACTAAAATAATTG
1 AAAAAAAAAGTCAATTAAAAATAAACT-AAATAATTG
11345988 ATTTAATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 17 0.50
37 8 0.24
38 9 0.26
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (37 bp):
AAAAAAAAAGTCAATTAAAAATAAACTAAATAATTGT
Found at i:11347793 original size:168 final size:167
Alignment explanation
Indices: 11347510--11347840 Score: 536
Period size: 168 Copynumber: 2.0 Consensus size: 167
11347500 TCTAATTTTG
* * * * * *
11347510 ATTGCTGATTTCTTTGCTAAATGTCTTGAATGCATAATAGTATATGCATATAAATTTAGTTCCTT
1 ATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGTATATGCAGATAAATTTAATTCCTT
* *
11347575 AAGATCGTATTTAGTTCTTTGCTCAAATCAAAGAGTTGTTAAAAAGGAAAAAGGAGGGCATATGG
66 AAGATCGTATTTAATTCTTTGCTCAAATCAAAGAGTTGTTAAAAAGGAAAAAGGAGGGCATAAGG
11347640 GGAAGAGAAGACTGCGGCAATAACAAGTTGAAACGTA
131 GGAAGAGAAGACTGCGGCAATAACAAGTTGAAACGTA
**
11347677 ATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGTATATGCAGATAAATTTTAATTTGT
1 ATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGTATATGCAGATAAA-TTTAATTCCT
* *
11347742 TAAGATCTTATTTAATTCTTTGTTCAAATCAAAGAGTTGTTAAAAAGGAAAAAGGAGGGCATAAG
65 TAAGATCGTATTTAATTCTTTGCTCAAATCAAAGAGTTGTTAAAAAGGAAAAAGGAGGGCATAAG
*
11347807 GGGAAGAGAAGACTGGGGCAATAACAAGTTGAAA
130 GGGAAGAGAAGACTGCGGCAATAACAAGTTGAAA
11347841 GGAACAAGTC
Statistics
Matches: 150, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
167 49 0.33
168 101 0.67
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (167 bp):
ATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGTATATGCAGATAAATTTAATTCCTT
AAGATCGTATTTAATTCTTTGCTCAAATCAAAGAGTTGTTAAAAAGGAAAAAGGAGGGCATAAGG
GGAAGAGAAGACTGCGGCAATAACAAGTTGAAACGTA
Found at i:11347896 original size:10 final size:11
Alignment explanation
Indices: 11347882--11347906 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11347872 CAATAAAACT
11347882 AAAAAAAAAAG
1 AAAAAAAAAAG
11347893 AAAAAAAAAAG
1 AAAAAAAAAAG
11347904 AAA
1 AAA
11347907 GAAGATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:11348737 original size:2 final size:2
Alignment explanation
Indices: 11348730--11348785 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
11348720 TGTATAAAGT
11348730 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11348772 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
11348786 AAGTGTGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11352169 original size:165 final size:165
Alignment explanation
Indices: 11351897--11352231 Score: 564
Period size: 165 Copynumber: 2.0 Consensus size: 165
11351887 CTACCATTAT
*
11351897 GGCATAGCGGGCCATTCTATTGAAAATTACCTTTCTTTAAAGCAAAAAATGCAACATCTGATCAA
1 GGCATAGCAGGCCATTCTATTGAAAATTACCTTTCTTTAAAGCAAAAAATGCAACATCTGATCAA
*
11351962 AAAAAGGTGATAAGTTTTGATACCAGTGGGAGCTCAACACCTAATATTAGTGAAAATCCTTTGTC
66 AAAAAGGTGATAAGTTTTGATACCAGTGAGAGCTCAACACCTAATATTAGTGAAAATCCTTTG-C
* *
11352027 C-AGTCATACAGTCAATGCCCTGGACAAAAACAAAA
130 CTAGTCATACAATCAATGCCCTAGACAAAAACAAAA
*
11352062 GGCATAGCAGGCTATTCTATTGAAAATTACCTTTCTTTAAAGCAAAAAATGCAACATCTGATCAA
1 GGCATAGCAGGCCATTCTATTGAAAATTACCTTTCTTTAAAGCAAAAAATGCAACATCTGATCAA
* * *
11352127 AGAAGGGTGATAAGTTTTGATACCAGTGAGAGCTCAACACCTAATGTTAGTGAAAATCCTTTGCC
66 AAAAAGGTGATAAGTTTTGATACCAGTGAGAGCTCAACACCTAATATTAGTGAAAATCCTTTGCC
* *
11352192 TAGTCATACAATTAATGCCCTAGACAAAAATAAAA
131 TAGTCATACAATCAATGCCCTAGACAAAAACAAAA
11352227 GGCAT
1 GGCAT
11352232 GCAAAAAAAA
Statistics
Matches: 159, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
164 2 0.01
165 157 0.99
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (165 bp):
GGCATAGCAGGCCATTCTATTGAAAATTACCTTTCTTTAAAGCAAAAAATGCAACATCTGATCAA
AAAAAGGTGATAAGTTTTGATACCAGTGAGAGCTCAACACCTAATATTAGTGAAAATCCTTTGCC
TAGTCATACAATCAATGCCCTAGACAAAAACAAAA
Found at i:11357756 original size:67 final size:67
Alignment explanation
Indices: 11357638--11357769 Score: 158
Period size: 67 Copynumber: 2.0 Consensus size: 67
11357628 GCTTGATCTA
* * * * * ** *
11357638 AAAAACAAAGAAAGAGAAAGTTCAAATTAAAAACCCAAAAGGGTGGTTTGAACTCTAAAAAAAAA
1 AAAAACAAAGAAAAAAAAAGTTCAAATCAAAAACCAAAAAGGATGACTTGAA-TCCAAAAAAAAA
11357703 ACC
65 ACC
* *
11357706 AAAAACAAA-AAAAAAAAAGTTCAAGTCAAAAACCAAAAAGGATGACTTGAATCCAAAGAAAAAA
1 AAAAACAAAGAAAAAAAAAGTTCAAATCAAAAACCAAAAAGGATGACTTGAATCCAAAAAAAAAA
11357770 GGTATGGATT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 11 0.20
67 34 0.63
68 9 0.17
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (67 bp):
AAAAACAAAGAAAAAAAAAGTTCAAATCAAAAACCAAAAAGGATGACTTGAATCCAAAAAAAAAA
CC
Found at i:11358365 original size:40 final size:41
Alignment explanation
Indices: 11358281--11358472 Score: 174
Period size: 40 Copynumber: 4.7 Consensus size: 41
11358271 ATTCAGGCTG
* * * * *
11358281 ATGAAAGATTGTTTCTTTGCTAAATATGGGCCTCCAGGAGA
1 ATGAAAAATAGTTTCTTTGCCAAATATGTGCCTCCAGGTGA
*
11358322 ATGAAAAATAGTTTCTTTGACAAA-ATGTGCCTCCAGGTGA
1 ATGAAAAATAGTTTCTTTGCCAAATATGTGCCTCCAGGTGA
* * * **
11358362 ATGAAAAATAGTTTCTTTTCCAAA-ATGTACTTTTAGGCT-A
1 ATGAAAAATAGTTTCTTTGCCAAATATGTGCCTCCAGG-TGA
* * * ** * * **
11358402 ATGAAAGATGGTTTCTTTGCCAAAGATGCACTTTCAGGCAA
1 ATGAAAAATAGTTTCTTTGCCAAATATGTGCCTCCAGGTGA
11358443 ATGAAAAATAGTTTCTTTGCCAAATATGTG
1 ATGAAAAATAGTTTCTTTGCCAAATATGTG
11358473 TATTTAGGAA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 67 0.54
41 58 0.46
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (41 bp):
ATGAAAAATAGTTTCTTTGCCAAATATGTGCCTCCAGGTGA
Found at i:11359092 original size:114 final size:115
Alignment explanation
Indices: 11358942--11359165 Score: 256
Period size: 114 Copynumber: 1.9 Consensus size: 115
11358932 TTTTACCTCG
* * * *
11358942 ACTCGATCTTGGTCACTTTATTTTGACTCACGGCATTGT-CTCAGTCACTCGATGTCGACTTAGA
1 ACTCGATCTTGGTCA--TTATTTTGACTCACAGCATTGTCCT-AGTCACTCGATCTCAAATTAGA
* * * * *
11359006 TCATATCATC-TTCAGACTTACTACATTAGTCTAGTTATTTATTTACAACCTTA
63 TCAAATCATCGTT-AGACTCACAACATCAGTCTAATTATTTATTTACAACCTTA
* ** * * *
11359059 ACTCGATCTTGGTCA-TCTTTTGACTCGTAGCATTGTCCTAGTCATTTGATCTCAAATTAGGTCA
1 ACTCGATCTTGGTCATTATTTTGACTCACAGCATTGTCCTAGTCACTCGATCTCAAATTAGATCA
11359123 AATCATCGTTAGACTCACAACATCAGTCTAATTATTTATTTAC
66 AATCATCGTTAGACTCACAACATCAGTCTAATTATTTATTTAC
11359166 GATCTCGATT
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
114 71 0.79
115 4 0.04
117 15 0.17
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (115 bp):
ACTCGATCTTGGTCATTATTTTGACTCACAGCATTGTCCTAGTCACTCGATCTCAAATTAGATCA
AATCATCGTTAGACTCACAACATCAGTCTAATTATTTATTTACAACCTTA
Found at i:11359312 original size:114 final size:114
Alignment explanation
Indices: 11358990--11359312 Score: 317
Period size: 114 Copynumber: 2.8 Consensus size: 114
11358980 TCTCAGTCAC
* * * * * * *
11358990 TCGATGTCGACTTAGATCATATCATCTTCAGACTTACTACATTAGTCTAGTTATTTATTTACAAC
1 TCGATCTCGACTTAGGTCAAATCATCGTCAGACTCACAACATTAGTCTAGTTATTTATTTACGAC
** * * * * ** *
11359055 CTTAACTCGATCTTGGTCATCTTTTGACTCGTAGCATTGTCCTAGTCAT
66 CTCGACTCAATCTTAGTCATATTTTGACTTGTAGCATCATCCTAATCAT
* * * * * * *
11359104 TTGATCTCAAATTAGGTCAAATCATCGTTAGACTCACAACATCAGTCTAATTATTTATTTACGAT
1 TCGATCTCGACTTAGGTCAAATCATCGTCAGACTCACAACATTAGTCTAGTTATTTATTTACGAC
* * * * *
11359169 CTCGATTCAGTCCTAGTCATATTTTGACTTGTGGCATCAT-CTCAATTAT
66 CTCGACTCAATCTTAGTCATATTTTGACTTGTAGCATCATCCT-AATCAT
* * * * *
11359218 TCGATCTCGACTTAGGTCAGATCATCGTCAAACTCACAACATTAATCCAGTTATTTATTTATGAC
1 TCGATCTCGACTTAGGTCAAATCATCGTCAGACTCACAACATTAGTCTAGTTATTTATTTACGAC
11359283 CTCGACTCAATCTTAGTCAT-TTTCTGACTT
66 CTCGACTCAATCTTAGTCATATTT-TGACTT
11359313 ACGACATCAG
Statistics
Matches: 164, Mismatches: 43, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
113 5 0.03
114 159 0.97
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (114 bp):
TCGATCTCGACTTAGGTCAAATCATCGTCAGACTCACAACATTAGTCTAGTTATTTATTTACGAC
CTCGACTCAATCTTAGTCATATTTTGACTTGTAGCATCATCCTAATCAT
Found at i:11359680 original size:12 final size:12
Alignment explanation
Indices: 11359660--11359749 Score: 51
Period size: 12 Copynumber: 7.4 Consensus size: 12
11359650 TTGTTCATCA
*
11359660 TTATCATTATTT
1 TTATTATTATTT
11359672 TTATTATTAGTATT
1 TTATTATTA-T-TT
* *
11359686 ATTAGTATTATTA
1 -TTATTATTATTT
***
11359699 TTATTATTACCA
1 TTATTATTATTT
* *
11359711 TTATTAATAATT
1 TTATTATTATTT
11359723 TTATT-TTATTTT
1 TTATTATTA-TTT
11359735 TTATT-TT-TTT
1 TTATTATTATTT
11359745 TTATT
1 TTATT
11359750 TTTTTCTGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
10 8 0.13
11 2 0.03
12 39 0.63
13 2 0.03
14 3 0.05
15 8 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:11359716 original size:3 final size:3
Alignment explanation
Indices: 11359659--11359707 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
11359649 CTTGTTCATC
* * * *
11359659 ATT ATC ATT ATT TTT ATT ATT AGT ATT ATT AGT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11359707 A
1 A
11359708 CCATTATTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:11359740 original size:17 final size:17
Alignment explanation
Indices: 11359720--11359753 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11359710 ATTATTAATA
11359720 ATTTTATTTTATTTTTT
1 ATTTTATTTTATTTTTT
*
11359737 ATTTTTTTTTATTTTTT
1 ATTTTATTTTATTTTTT
11359754 TCTGTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
ATTTTATTTTATTTTTT
Found at i:11359744 original size:10 final size:10
Alignment explanation
Indices: 11359721--11359754 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
11359711 TTATTAATAA
11359721 TTTTATTTTATT
1 TTTTA-TTT-TT
11359733 TTTTATTTTT
1 TTTTATTTTT
11359743 TTTTATTTTT
1 TTTTATTTTT
11359753 TT
1 TT
11359755 CTGTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
11 3 0.14
12 5 0.23
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:11360917 original size:121 final size:120
Alignment explanation
Indices: 11360686--11360985 Score: 314
Period size: 121 Copynumber: 2.5 Consensus size: 120
11360676 TTTATTTCAG
* * * * *
11360686 CTCAGTCCAGATCATTTTCTTGGCTCACGATTTCATCTTGGTCATTCATCATCAACCTTCACTCA
1 CTCAGTCCAGATCATTTTTTTGACTCACGATTTTATC-TGGTCATTCATCTTCGACCTTCACTCA
** * *
11360751 GTCCTAGTCGTTTTATCTTTTAGACTCGCGATTTTATCCGAGTCATTCACTCTCGA
65 GTCCTAGTCACTTTATCTTTTAGACTCACGATTTTATCCGAGTCATCCACTCTCGA
* * * * *
11360807 CTTAGTCTAGATCATTTTTTTGACTCACGATTTTATCTCGGTCATTCATCTTTGACCTTGACTCG
1 CTCAGTCCAGATCATTTTTTTGACTCACGATTTTATCT-GGTCATTCATCTTCGACCTTCACTCA
* * * * * * **
11360872 GTCCTAGTCACTTTATCTTTTAGGCTTATGGTTTTGTCTTG-GTCATCCGTTCTCGA
65 GTCCTAGTCACTTTATCTTTTAGACTCACGATTTTATC-CGAGTCATCCACTCTCGA
* ** * *
11360928 CTCAGTCCAGATCATTTTTCTGACTCGTGATTTTTTCATAGTCATTCATCTTCGACCT
1 CTCAGTCCAGATCATTTTTTTGACTCACGATTTTATC-TGGTCATTCATCTTCGACCT
11360986 CTTCTCAATC
Statistics
Matches: 146, Mismatches: 30, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
120 1 0.01
121 143 0.98
122 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.42
Consensus pattern (120 bp):
CTCAGTCCAGATCATTTTTTTGACTCACGATTTTATCTGGTCATTCATCTTCGACCTTCACTCAG
TCCTAGTCACTTTATCTTTTAGACTCACGATTTTATCCGAGTCATCCACTCTCGA
Found at i:11361079 original size:37 final size:37
Alignment explanation
Indices: 11361038--11361176 Score: 122
Period size: 37 Copynumber: 3.8 Consensus size: 37
11361028 ATCCCAGTCA
* *
11361038 TTTGATCTTGGCTTAGTCTAGATTATTTTCTTAATTT
1 TTTGATCTTGGCTTAGTCCAGATCATTTTCTTAATTT
* * * * *
11361075 TTTGATCCTGCCTTAGTCCAGACCAACTTT-TTAACTT
1 TTTGATCTTGGCTTAGTCCAGATC-ATTTTCTTAATTT
* * *
11361112 TTCGATCTTGGCTCAGTCCAGATCATTTTCTCAACTTT
1 TTTGATCTTGGCTTAGTCCAGATCATTTTCTTAA-TTT
* *
11361150 TTT-ATCTTGG-TTCATTCTAGATCATTT
1 TTTGATCTTGGCTT-AGTCCAGATCATTT
11361177 ACCCAACTAT
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
36 5 0.06
37 66 0.84
38 8 0.10
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.48
Consensus pattern (37 bp):
TTTGATCTTGGCTTAGTCCAGATCATTTTCTTAATTT
Found at i:11361184 original size:37 final size:37
Alignment explanation
Indices: 11361107--11361193 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 37
11361097 CCAACTTTTT
* *
11361107 AACTTTTCGATCTTGGCTCAGTCCAGATCATTTTCTC
1 AACTTTTCGATCTTGGCTCAGTCCAGATCATTTACCC
** * * *
11361144 AACTTTTTTATCTTGGTTCATTCTAGATCATTTACCC
1 AACTTTTCGATCTTGGCTCAGTCCAGATCATTTACCC
*
11361181 AACTATTCGATCT
1 AACTTTTCGATCT
11361194 CAACTCAATC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (37 bp):
AACTTTTCGATCTTGGCTCAGTCCAGATCATTTACCC
Found at i:11361243 original size:73 final size:74
Alignment explanation
Indices: 11361153--11361371 Score: 246
Period size: 73 Copynumber: 3.0 Consensus size: 74
11361143 CAACTTTTTT
* * *
11361153 ATCTTGGTTCATTCTAGATCATTTACCCAACTATTCGATCTCAACTCAATCCAAATCTTTTTTCT
1 ATCTTGGTTCAGTCTAGATCATTTTCCCAACTATTCGATCTCAACTCAATCCAAATCATTTTTCT
11361218 AACTTGTCA
66 AACTTGTCA
* * * * *
11361227 ATC-TGGTTCAGTCTAGATCATTTTCTCAACTATTTGATCTCTACTCAATCTAGATCATTTTTCT
1 ATCTTGGTTCAGTCTAGATCATTTTCCCAACTATTCGATCTCAACTCAATCCAAATCATTTTTCT
* *
11361291 GACTTGTCG
66 AACTTGTCA
* * * * * *
11361300 ATCTTGGTTTAGTCCA-AGTCATTTTCCTAACTATTCGATCTCGGA-TCAATTCAGATCATTTTT
1 ATCTTGGTTCAGTCTAGA-TCATTTTCCCAACTATTCGATCTC-AACTCAATCCAAATCATTTTT
*
11361363 CAAACTTGT
64 CTAACTTGT
11361372 GGTTCAGTCC
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
73 64 0.52
74 57 0.47
75 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.42
Consensus pattern (74 bp):
ATCTTGGTTCAGTCTAGATCATTTTCCCAACTATTCGATCTCAACTCAATCCAAATCATTTTTCT
AACTTGTCA
Found at i:11361303 original size:37 final size:37
Alignment explanation
Indices: 11361165--11361303 Score: 99
Period size: 37 Copynumber: 3.8 Consensus size: 37
11361155 CTTGGTTCAT
** * *
11361165 TCTAGATCATTTACCCAACTAT-TCGATCTCAACTCAA
1 TCTAGATCATTTTTCTAACT-TGTCGATCTCTACTCAA
* * * * * *
11361202 TCCAAATCTTTTTTCTAACTTGTCAATCTGGT--TCAG
1 TCTAGATCATTTTTCTAACTTGTCGATCT-CTACTCAA
*
11361238 TCTAGATCA-TTTTCTCAACTAT-TTGATCTCTACTCAA
1 TCTAGATCATTTTTCT-AACT-TGTCGATCTCTACTCAA
*
11361275 TCTAGATCATTTTTCTGACTTGTCGATCT
1 TCTAGATCATTTTTCTAACTTGTCGATCT
11361304 TGGTTTAGTC
Statistics
Matches: 75, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
35 7 0.09
36 20 0.27
37 42 0.56
38 6 0.08
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (37 bp):
TCTAGATCATTTTTCTAACTTGTCGATCTCTACTCAA
Found at i:11361340 original size:74 final size:73
Alignment explanation
Indices: 11361131--11361371 Score: 222
Period size: 74 Copynumber: 3.3 Consensus size: 73
11361121 GGCTCAGTCC
* ** * * * *
11361131 AGATCA-TTTTCTCAACTTTTTTATCTTGGTTCATTCTAGATCATTTACCCAACTATTCGATCTC
1 AGATCATTTTTCT-AACTTGTCAATC-TGGTTCAGTCAAGATCATTTTCCTAACTATTCGATCTC
*
11361195 AACTCAATCC
64 AACTCAATCT
* * * * *
11361205 AAATCTTTTTTCTAACTTGTCAATCTGGTTCAGTCTAGATCATTTT-CTCAACTATTTGATCTCT
1 AGATCATTTTTCTAACTTGTCAATCTGGTTCAGTCAAGATCATTTTCCT-AACTATTCGATCTCA
11361269 ACTCAATCT
65 ACTCAATCT
* * *
11361278 AGATCATTTTTCTGACTTGTCGATCTTGGTTTAGTCCAAG-TCATTTTCCTAACTATTCGATCTC
1 AGATCATTTTTCTAACTTGTCAATC-TGGTTCAGT-CAAGATCATTTTCCTAACTATTCGATCTC
*
11361342 GGA-TCAAT-T
64 -AACTCAATCT
*
11361351 CAGATCATTTTTCAAACTTGT
1 -AGATCATTTTTCTAACTTGT
11361372 GGTTCAGTCC
Statistics
Matches: 139, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
72 1 0.01
73 62 0.45
74 64 0.46
75 12 0.09
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (73 bp):
AGATCATTTTTCTAACTTGTCAATCTGGTTCAGTCAAGATCATTTTCCTAACTATTCGATCTCAA
CTCAATCT
Found at i:11361558 original size:3 final size:3
Alignment explanation
Indices: 11361519--11361640 Score: 73
Period size: 3 Copynumber: 42.7 Consensus size: 3
11361509 TAAGCTGATT
* *
11361519 TTA TTA -TA TTA -TA TTA -TA CT- TTA TTA -TA TTA TGA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11361562 TTA TTA TTA TTA TTA -TA GTA -TA TCA -TA TT- GTA TATA GTTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TT-A TTA
* * * *
11361606 ATA TTA ATA ATA ATA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11361641 TCTTCTTTCT
Statistics
Matches: 96, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
2 15 0.16
3 74 0.77
4 5 0.05
5 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:11363715 original size:21 final size:20
Alignment explanation
Indices: 11363682--11363741 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
11363672 TATCTTAATT
11363682 TTTCAAGTACTTTTTCTTAACC
1 TTTCAA-TACTTTTTCTT-ACC
* *
11363704 TTTCAATACTTTATCATTATC
1 TTTCAATACTTTTTC-TTACC
11363725 TTTCAATA-TTTTATCTT
1 TTTCAATACTTTT-TCTT
11363742 TACTTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.15
21 20 0.61
22 8 0.24
ACGTcount: A:0.25, C:0.18, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTCAATACTTTTTCTTACC
Found at i:11367760 original size:28 final size:27
Alignment explanation
Indices: 11367729--11367781 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
11367719 TATTCACTTC
11367729 ATTAAATATGAAAT-ATAATTTTTATTTT
1 ATTAAAT-TGAAATGA-AATTTTTATTTT
*
11367757 ATTAAATTGACATGAAATTTTTATT
1 ATTAAATTGAAATGAAATTTTTATT
11367782 AAAATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (27 bp):
ATTAAATTGAAATGAAATTTTTATTTT
Found at i:11369375 original size:6 final size:6
Alignment explanation
Indices: 11369364--11369391 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11369354 ATAAAATGTA
11369364 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
11369392 AAACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:11369528 original size:22 final size:20
Alignment explanation
Indices: 11369503--11369545 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
11369493 ATTTGGTTTA
11369503 TTCACAAAAAAATTTATTAAAT
1 TTCACAAAAAAA-TTA-TAAAT
* *
11369525 TTCATATAAAAATTATAAAT
1 TTCACAAAAAAATTATAAAT
11369545 T
1 T
11369546 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTCACAAAAAAATTATAAAT
Found at i:11370004 original size:19 final size:19
Alignment explanation
Indices: 11369980--11370019 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11369970 AAAAAAATTG
*
11369980 ACAACAATAAAATATCAAA
1 ACAACAAAAAAATATCAAA
*
11369999 ACAACAAAAAAATATTAAA
1 ACAACAAAAAAATATCAAA
11370018 AC
1 AC
11370020 TCAATACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (19 bp):
ACAACAAAAAAATATCAAA
Found at i:11370291 original size:20 final size:20
Alignment explanation
Indices: 11370268--11370309 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11370258 CCCCCCAACA
11370268 CCCCACCCCACCCAATCCCT
1 CCCCACCCCACCCAATCCCT
*
11370288 CCCCATCCCACCCAATCCCT
1 CCCCACCCCACCCAATCCCT
11370308 CC
1 CC
11370310 TCATGTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.69, G:0.00, T:0.12
Consensus pattern (20 bp):
CCCCACCCCACCCAATCCCT
Found at i:11372513 original size:21 final size:22
Alignment explanation
Indices: 11372489--11372537 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
11372479 GCACATATCT
11372489 TAAT-AGGTGTTACTGACATTA
1 TAATCAGGTGTTACTGACATTA
* *
11372510 TAATTTCATGTGTTACTGTCATTA
1 TAA--TCAGGTGTTACTGACATTA
11372534 TAAT
1 TAAT
11372538 TACATTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
21 3 0.13
22 1 0.04
23 1 0.04
24 18 0.78
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
TAATCAGGTGTTACTGACATTA
Found at i:11379822 original size:41 final size:41
Alignment explanation
Indices: 11379695--11379833 Score: 120
Period size: 41 Copynumber: 3.4 Consensus size: 41
11379685 TTGTATACTT
* * * * *
11379695 TCTATTATAATAATAGATGATGTTTGCTTTTTCAAATGTTA
1 TCTATTATGATAATAAATGATATTTACTTTTTCAAATGTAA
* * * * * **
11379736 TCTTTTATGGTAA-AAGATAATATTTACTTTTTTAAACGTCT
1 TCTATTATGATAATAA-ATGATATTTACTTTTTCAAATGTAA
* *
11379777 TCTATTATGATAATAAATGACATTTACTTTCTCAAATGTAA
1 TCTATTATGATAATAAATGATATTTACTTTTTCAAATGTAA
11379818 TCTATTAT-ATATATAA
1 TCTATTATGATA-ATAA
11379834 TTAGGTTAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
40 4 0.05
41 69 0.92
42 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (41 bp):
TCTATTATGATAATAAATGATATTTACTTTTTCAAATGTAA
Found at i:11381057 original size:34 final size:37
Alignment explanation
Indices: 11380999--11381075 Score: 124
Period size: 35 Copynumber: 2.2 Consensus size: 37
11380989 ACTATTAATG
*
11380999 AAATAAAATCATATTGATTGT-AAAAAAGTCAATTAA
1 AAATAAAATCATATTAATTGTAAAAAAAGTCAATTAA
11381035 AAATAAAAT-A-ATTAATTGTAAAAAAAGTCAATTAA
1 AAATAAAATCATATTAATTGTAAAAAAAGTCAATTAA
11381070 AAATAA
1 AAATAA
11381076 TCTAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
34 8 0.21
35 22 0.56
36 9 0.23
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (37 bp):
AAATAAAATCATATTAATTGTAAAAAAAGTCAATTAA
Found at i:11385207 original size:7 final size:7
Alignment explanation
Indices: 11385197--11385223 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11385187 AATAAAAACT
11385197 TTTTTTA
1 TTTTTTA
11385204 TTTTTTA
1 TTTTTTA
11385211 TTTTTTA
1 TTTTTTA
11385218 TTTTTT
1 TTTTTT
11385224 TTTAAATTTC
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:11385461 original size:3 final size:3
Alignment explanation
Indices: 11385455--11385493 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
11385445 GATTTTCATC
*
11385455 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11385494 GTAGTATAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11385537 original size:17 final size:17
Alignment explanation
Indices: 11385517--11385559 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
11385507 TACTATAGTA
11385517 TAGTATTATAAGTTTAT
1 TAGTATTATAAGTTTAT
11385534 TAGTATTATAAGTTTAT
1 TAGTATTATAAGTTTAT
11385551 TAGTATTAT
1 TAGTATTAT
11385560 TACTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TAGTATTATAAGTTTAT
Found at i:11385559 original size:9 final size:9
Alignment explanation
Indices: 11385455--11385579 Score: 73
Period size: 9 Copynumber: 14.4 Consensus size: 9
11385445 GATTTTCATC
*
11385455 ATTATTATT
1 ATTAGTATT
* *
11385464 GTTATTATT
1 ATTAGTATT
*
11385473 ATTATTATT
1 ATTAGTATT
*
11385482 ATTATTATT
1 ATTAGTATT
*
11385491 ATT-GTAGT
1 ATTAGTATT
*
11385499 A-TAGCTTTT
1 ATTAG-TATT
* *
11385508 ACTA-TAGT
1 ATTAGTATT
11385516 A-TAGTATT
1 ATTAGTATT
*
11385524 ATAAGT-TT
1 ATTAGTATT
11385532 ATTAGTATT
1 ATTAGTATT
*
11385541 ATAAGT-TT
1 ATTAGTATT
11385549 ATTAGTATT
1 ATTAGTATT
* *
11385558 ATTACTTTT
1 ATTAGTATT
*
11385567 ATTATTATT
1 ATTAGTATT
11385576 ATTA
1 ATTA
11385580 TTTCTATTTA
Statistics
Matches: 92, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
7 3 0.03
8 26 0.28
9 61 0.66
10 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (9 bp):
ATTAGTATT
Found at i:11386425 original size:5 final size:5
Alignment explanation
Indices: 11386403--11386468 Score: 75
Period size: 5 Copynumber: 13.0 Consensus size: 5
11386393 TTTCTTTTCC
11386403 ATTTT CATTTT A--TT ATTTT ATTTT ATTTAT ATTTT ATTTT ATTTAT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTT-T ATTTT ATTTT ATTT-T
11386449 AATTTT A-TTT ATTTT ATTTT
1 -ATTTT ATTTT ATTTT ATTTT
11386469 TTTATTTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.06
4 4 0.07
5 31 0.57
6 12 0.22
7 4 0.07
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:11386439 original size:21 final size:21
Alignment explanation
Indices: 11386415--11386484 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
11386405 TTTCATTTTA
11386415 TTATTTTATTTTATTTATATT
1 TTATTTTATTTTATTTATATT
11386436 TTATTTTATTTATAATTT-TA-T
1 TTATTTTATTT-T-ATTTATATT
*
11386457 TTATTTTATTTT-TTTATTTGT
1 TTATTTTATTTTATTTATAT-T
11386478 TTATTTT
1 TTATTTT
11386485 CAATGGATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
20 1 0.02
21 31 0.72
22 3 0.07
23 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.77
Consensus pattern (21 bp):
TTATTTTATTTTATTTATATT
Found at i:11386464 original size:17 final size:17
Alignment explanation
Indices: 11386411--11386475 Score: 89
Period size: 16 Copynumber: 3.9 Consensus size: 17
11386401 CCATTTTCAT
11386411 TTTATTATTTTATTTTA
1 TTTATTATTTTATTTTA
11386428 TTTA-TATTTTATTTTA
1 TTTATTATTTTATTTTA
*
11386444 TTTATAATTTTA-TTTA
1 TTTATTATTTTATTTTA
*
11386460 TTTTATTTTTTTATTT
1 -TTTATTATTTTATTT
11386476 GTTTATTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 20 0.48
17 20 0.48
18 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTATTTTATTTTA
Found at i:11386470 original size:16 final size:15
Alignment explanation
Indices: 11386410--11386484 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 15
11386400 TCCATTTTCA
11386410 TTTTATTATTTTATTT
1 TTTTATT-TTTTATTT
*
11386426 TATTTATATTTTATTT
1 T-TTTATTTTTTATTT
*
11386442 TATTTATAATTTTATTT
1 T-TTTAT-TTTTTATTT
11386459 ATTTTATTTTTTTATTT
1 -TTTTA-TTTTTTATTT
*
11386476 GTTTATTTT
1 TTTTATTTT
11386485 CAATGGATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
15 4 0.08
16 20 0.38
17 26 0.50
18 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTATTTTTTATTT
Found at i:11386481 original size:33 final size:33
Alignment explanation
Indices: 11386411--11386475 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
11386401 CCATTTTCAT
*
11386411 TTTATTATTTTATTTTATTTATATTTTATTTTA
1 TTTATAATTTTATTTTATTTATATTTTATTTTA
11386444 TTTATAATTTTA-TTTATTT-TA-TTT-TTTTA
1 TTTATAATTTTATTTTATTTATATTTTATTTTA
11386473 TTT
1 TTT
11386476 GTTTATTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 8 0.26
30 3 0.10
31 2 0.06
32 7 0.23
33 11 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTATAATTTTATTTTATTTATATTTTATTTTA
Found at i:11386594 original size:11 final size:11
Alignment explanation
Indices: 11386574--11386608 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
11386564 AATAAGTTTG
*
11386574 AAAAACAAAAA
1 AAAAATAAAAA
11386585 AAAAATAAAAA
1 AAAAATAAAAA
*
11386596 AAGAATAAAAA
1 AAAAATAAAAA
11386607 AA
1 AA
11386609 TCTTTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.89, C:0.03, G:0.03, T:0.06
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:11390889 original size:19 final size:19
Alignment explanation
Indices: 11390864--11390902 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11390854 ACTAATAGAT
*
11390864 AAAAAAAAAAAGAAAAAAGG
1 AAAAAAAAAAA-AACAAAGG
11390884 AAAAAAAAAAAAACAAAGG
1 AAAAAAAAAAAAACAAAGG
11390903 GTGAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAACAAAGG
Found at i:11392109 original size:121 final size:121
Alignment explanation
Indices: 11391894--11392198 Score: 283
Period size: 121 Copynumber: 2.5 Consensus size: 121
11391884 TTCATCTCGA
* * * * * * **
11391894 TCATTCATCTTCGACCTTGACTTGGTCTTGGTCACTTTATCTTTTAGACTAGTGGTTTCGTCTTG
1 TCATTCATCTTCGACCTCGACTCGATCTTGGTCACTTTATCTTTTAGACTAGCGATTTCATCCAG
* ** * *
11391959 GTTATTTGATCTCGGCTCAATCTAGATCATTTTTTTGACTCACAGTTTCGTCCTAG
66 GTCATCCGATCTCGGCTCAATCTAGATCATTCTCTTGACTCACAGTTTCGTCCTAG
* * *
11392015 TCATTCATCTTTGATCTCGACTCGATCTTGGTCATTTTATCTTTTAGACTAGCGATTTCATCCAG
1 TCATTCATCTTCGACCTCGACTCGATCTTGGTCACTTTATCTTTTAGACTAGCGATTTCATCCAG
* * * * * * *
11392080 GTCATCCGATCTTGGCTTAGT-TCATATCATTCTCTTGACTCA-TGATTTTGT-CTCGG
66 GTCATCCGATCTCGGCTCAATCT-AGATCATTCTCTTGACTCACAG-TTTCGTCCT-AG
* * * * * * * *
11392136 TCATTCATCTTCGACCTTGACTCAATCCTAGTCGCTTCATCTTTTAAACTCGCGATTTCATCC
1 TCATTCATCTTCGACCTCGACTCGATCTTGGTCACTTTATCTTTTAGACTAGCGATTTCATCC
11392199 CAGTTATCTT
Statistics
Matches: 147, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
120 4 0.03
121 143 0.97
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (121 bp):
TCATTCATCTTCGACCTCGACTCGATCTTGGTCACTTTATCTTTTAGACTAGCGATTTCATCCAG
GTCATCCGATCTCGGCTCAATCTAGATCATTCTCTTGACTCACAGTTTCGTCCTAG
Found at i:11392599 original size:3 final size:3
Alignment explanation
Indices: 11392593--11392743 Score: 59
Period size: 3 Copynumber: 51.0 Consensus size: 3
11392583 TTTCATCATC
* * * * * *
11392593 ATT ATT ATT ACT ATT ATTT CTT AAT AGT ATT ATT ATTT GTT ATT ATA
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
11392640 ATGT ACT ATT -TT A-T ATT ATT ATT ATT ATT ATT -GT AGT A-T AGCTT
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT
* * * *
11392684 ATT ACT A-T AGT A-T AGT ATT A-T ATGT -TT ATT AGT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A-TT
11392727 -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
11392744 TCTATTTATT
Statistics
Matches: 114, Mismatches: 18, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
2 16 0.14
3 88 0.77
4 8 0.07
5 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:11393035 original size:20 final size:20
Alignment explanation
Indices: 11393000--11393049 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
11392990 GAATAGACGG
*
11393000 AGTTGATTTTT-TGGGAAAT
1 AGTTGATTTTTGGGGGAAAT
*
11393019 AGTTTATTTTTGGGGGAAAT
1 AGTTGATTTTTGGGGGAAAT
11393039 AGTTGATTTTT
1 AGTTGATTTTT
11393050 TAAGAGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (20 bp):
AGTTGATTTTTGGGGGAAAT
Found at i:11393485 original size:16 final size:19
Alignment explanation
Indices: 11393464--11393512 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
11393454 TTTTATGTAT
11393464 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
11393481 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
11393499 TGTATATATTTATT
1 TGTAT-TATTTATT
11393513 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:11393578 original size:63 final size:60
Alignment explanation
Indices: 11393476--11393653 Score: 162
Period size: 63 Copynumber: 2.8 Consensus size: 60
11393466 TATTATTTAT
* * *
11393476 TATTATTATTATGTATTAATATATGTATATATTTATTTATTTATTTT-TTGTTAAT-ATTTATGT
1 TATT-TTATTATTTATT-ATATATATATATATTTTTTTATTT-TTTTATT-TTAATCATTT-T-T
11393539 G
60 G
*
11393540 TATTTTATTATTTATGTATATATATATATATTTTTTTATCTTTTTTATTTTATTCATTTTTG
1 TATTTTATTATTTAT-TATATATATATATATTTTTTTAT-TTTTTTATTTTAATCATTTTTG
* *
11393602 TATTTTTACTTATCTAATTATATATCTGATATATTTTTTTATTATTATTTAT
1 TA-TTTTA-TTAT-TTATTATATATAT-ATATATTTTTTTATT-TT-TTTAT
11393654 CCTATAATAT
Statistics
Matches: 98, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
62 4 0.04
63 44 0.45
64 26 0.27
65 19 0.19
66 5 0.05
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (60 bp):
TATTTTATTATTTATTATATATATATATATTTTTTTATTTTTTTATTTTAATCATTTTTG
Found at i:11394014 original size:26 final size:24
Alignment explanation
Indices: 11393972--11394025 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
11393962 CTGGGAGTGA
*
11393972 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
11393996 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
11394022 GAAA
1 GAAA
11394026 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:11394093 original size:31 final size:31
Alignment explanation
Indices: 11394042--11394104 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
11394032 GATTCCGACA
* ** *
11394042 AAAATTCCGGCGAAGTTTGAATTTTCCGGCG
1 AAAATTCCGGCCAACATTGAAGTTTCCGGCG
11394073 AAAATTCCGGCCAACATTGAAGTTTCCGGCG
1 AAAATTCCGGCCAACATTGAAGTTTCCGGCG
11394104 A
1 A
11394105 CCTGCCCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAATTCCGGCCAACATTGAAGTTTCCGGCG
Found at i:11394190 original size:20 final size:20
Alignment explanation
Indices: 11394165--11394202 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11394155 ACTTCCGGTG
*
11394165 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
11394185 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
11394203 ACCGGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:11395676 original size:18 final size:17
Alignment explanation
Indices: 11395650--11395700 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
11395640 TATGATTTTG
11395650 ATTTATTTTATTTTTAGTTT
1 ATTT-TTTTATTTTTA--TT
11395670 ATTTTTTTAATTTTTATT
1 ATTTTTTT-ATTTTTATT
*
11395688 ATTTATTTATTTT
1 ATTTTTTTATTTT
11395701 CACTGAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 9 0.31
19 4 0.14
20 11 0.38
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
ATTTTTTTATTTTTATT
Found at i:11400061 original size:22 final size:22
Alignment explanation
Indices: 11400036--11400081 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11400026 AGTTATGGTG
11400036 TATTTGTCTATTTATAAAGTTC
1 TATTTGTCTATTTATAAAGTTC
11400058 TATTTGTCTATTTATAAAGTTC
1 TATTTGTCTATTTATAAAGTTC
11400080 TA
1 TA
11400082 CCAAACTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (22 bp):
TATTTGTCTATTTATAAAGTTC
Found at i:11408171 original size:6 final size:6
Alignment explanation
Indices: 11408160--11408197 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
11408150 TAAGTCTAGA
11408160 TGATGG TGATGG TGATGG T-AGTGG TGATGG TGATGG TG
1 TGATGG TGATGG TGATGG TGA-TGG TGATGG TGATGG TG
11408198 CAAATTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.03
6 28 0.93
7 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (6 bp):
TGATGG
Found at i:11418773 original size:41 final size:41
Alignment explanation
Indices: 11418722--11418832 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
11418712 AAATTTTATA
* * *
11418722 CTTTCTATTATAATAATAGATGATGTTTACCTTTCCAAACGT
1 CTTT-TATTATGATAATAGATGATATTTACCTTTCCAAACAT
* * * **
11418764 -TATTTATTATGATAAAAGATAATATTTACTTTTTTAAACAT
1 CT-TTTATTATGATAATAGATGATATTTACCTTTCCAAACAT
*
11418805 CTTTTATTATGATAATAGATGACATTTA
1 CTTTTATTATGATAATAGATGATATTTA
11418833 TTTTCTCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 53 0.95
42 3 0.05
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (41 bp):
CTTTTATTATGATAATAGATGATATTTACCTTTCCAAACAT
Found at i:11419275 original size:41 final size:41
Alignment explanation
Indices: 11419193--11419278 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
11419183 TTATACTTTT
* ** * *
11419193 TATTATGATAATAGATGATGTTTAATTTTTCAAATATCATC
1 TATTATGATAATAGACGACATTTAATTTCTCAAATACCATC
*
11419234 TATTATGATAATAGACGACATTTACTTTCTCAAA-AGCCATC
1 TATTATGATAATAGACGACATTTAATTTCTCAAATA-CCATC
11419275 TATT
1 TATT
11419279 GTATTATAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (41 bp):
TATTATGATAATAGACGACATTTAATTTCTCAAATACCATC
Found at i:11420099 original size:35 final size:36
Alignment explanation
Indices: 11420055--11420122 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
11420045 AATCATATTG
11420055 ATTGTAAAAAAAA-TCAATTAAAAATAAACTAATTT
1 ATTGTAAAAAAAAGTCAATTAAAAATAAACTAATTT
11420090 ATTGTAAAAAAAAGTCAATTAAAAATAAACTAA
1 ATTGTAAAAAAAAGTCAATTAAAAATAAACTAA
11420123 AATAATTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 13 0.41
36 19 0.59
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (36 bp):
ATTGTAAAAAAAAGTCAATTAAAAATAAACTAATTT
Found at i:11427127 original size:12 final size:11
Alignment explanation
Indices: 11427110--11427154 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 11
11427100 TATTATTTAA
11427110 TTTTTTCTCTTT
1 TTTTTTCT-TTT
11427122 TTTTTTCTTTT
1 TTTTTTCTTTT
11427133 TCTTTTTCTTTCT
1 T-TTTTTCTTT-T
11427146 TTCTTTTCT
1 TT-TTTTCT
11427155 AGGAACTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.13
12 18 0.60
13 8 0.27
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:11427134 original size:6 final size:6
Alignment explanation
Indices: 11427111--11427143 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
11427101 ATTATTTAAT
11427111 TTTTTC TCTTTT- TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTT
11427144 CTTTCTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.16
6 17 0.68
7 4 0.16
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:11427138 original size:16 final size:17
Alignment explanation
Indices: 11427112--11427147 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
11427102 TTATTTAATT
*
11427112 TTTTCTCTTTTTTTTTC
1 TTTTCTCTTTTTCTTTC
11427129 TTTT-TCTTTTTCTTTC
1 TTTTCTCTTTTTCTTTC
11427145 TTT
1 TTT
11427148 CTTTTCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTCTTTTTCTTTC
Found at i:11427339 original size:17 final size:17
Alignment explanation
Indices: 11427314--11427347 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11427304 AGGGGAACAA
11427314 CCTTACAAAAAAAAAAC
1 CCTTACAAAAAAAAAAC
*
11427331 CCTTGCAAAAAAAAAAC
1 CCTTACAAAAAAAAAAC
11427348 AAAAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.24, G:0.03, T:0.12
Consensus pattern (17 bp):
CCTTACAAAAAAAAAAC
Found at i:11427393 original size:20 final size:21
Alignment explanation
Indices: 11427343--11427394 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
11427333 TTGCAAAAAA
11427343 AAAACAAAAAAAAACTTGTTG
1 AAAACAAAAAAAAACTTGTTG
*
11427364 AAAA-ATAAAAAAACCATT-TT-
1 AAAACA-AAAAAAAAC-TTGTTG
11427384 AAAACAAAAAA
1 AAAACAAAAAA
11427395 CTGCCAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 10 0.37
21 15 0.56
22 2 0.07
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAACAAAAAAAAACTTGTTG
Found at i:11427786 original size:13 final size:11
Alignment explanation
Indices: 11427751--11427792 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
11427741 AAGAATTCTA
*
11427751 AGAGAAGGGAG
1 AGAGAAGGAAG
11427762 AGAGAAGGAAG
1 AGAGAAGGAAG
*
11427773 AGAGAAGGAAA
1 AGAGAAGGAAG
11427784 AGA-AAGGAA
1 AGAGAAGGAA
11427793 AAATGAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 6 0.21
11 23 0.79
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (11 bp):
AGAGAAGGAAG
Found at i:11428505 original size:22 final size:22
Alignment explanation
Indices: 11428479--11428520 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11428469 AATTTGTTAA
11428479 AAATA-GAATAAAAAAAAATAAG
1 AAATAGGAA-AAAAAAAAATAAG
*
11428501 AAATAGGAAAAAAGAAAATA
1 AAATAGGAAAAAAAAAAATA
11428521 TTATCCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (22 bp):
AAATAGGAAAAAAAAAAATAAG
Found at i:11429483 original size:15 final size:15
Alignment explanation
Indices: 11429463--11429499 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
11429453 AATTCCTTTT
11429463 TAAAAAAAATAAAAA
1 TAAAAAAAATAAAAA
* *
11429478 TAAAAATAATGAAAA
1 TAAAAAAAATAAAAA
11429493 TAAAAAA
1 TAAAAAA
11429500 TTTCACATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:11434703 original size:27 final size:27
Alignment explanation
Indices: 11434672--11434727 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
11434662 TTTTATATGT
11434672 ATCATTTTAAGAAAAGACATTGGCATC
1 ATCATTTTAAGAAAAGACATTGGCATC
* *
11434699 ATCATTTTAAGAGAAGACATTTGCATC
1 ATCATTTTAAGAAAAGACATTGGCATC
11434726 AT
1 AT
11434728 AGTGGTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (27 bp):
ATCATTTTAAGAAAAGACATTGGCATC
Found at i:11435180 original size:42 final size:42
Alignment explanation
Indices: 11435124--11435224 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
11435114 TACATTTGCA
* *
11435124 TTTCTCGGTGGTGATATCCGAGTATTGAAGTATGAA-TTTCAT
1 TTTCTTGGTGGTGATATCCGAGTATTAAAGTATGAACTTT-AT
*
11435166 TTTCTTGGTGGTGATATCTGAGTATTAAAGTATGAACTTTAT
1 TTTCTTGGTGGTGATATCCGAGTATTAAAGTATGAACTTTAT
**
11435208 TTTCTTAATGGTGATAT
1 TTTCTTGGTGGTGATAT
11435225 TCAAGACATT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
42 50 0.94
43 3 0.06
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.45
Consensus pattern (42 bp):
TTTCTTGGTGGTGATATCCGAGTATTAAAGTATGAACTTTAT
Found at i:11435287 original size:178 final size:179
Alignment explanation
Indices: 11435000--11435361 Score: 523
Period size: 178 Copynumber: 2.0 Consensus size: 179
11434990 TCTCGGTAAC
**
11435000 GATATCTAGGTATTAAAGTATGAATTTCATTTTCTTGGTGGAAATATTCAAAACATTTACAAAAT
1 GATATCTAGGTATTAAAGTATGAATTTCATTTTCTTAATGGAAATATTCAAAACATTTACAAAAT
* * *
11435065 CACTCATTGGTGATATCCGAGTCTAAAGTTTGAATTTGCATTCTTTCTCTACATTTGCA-TTTCT
66 CACTCAGTGGTGATATACGAGTCTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATTTTCT
** * * *
11435129 CGGTGGTGATATCCGAGTATTGAAGTATGAATTTCATTTTCTTGGTGGT
131 CAATGGTGATATCCAAGTATTAAAGTATGAATTTCATTTTCTTGATGGT
** * *
11435178 GATATCT-GAGTATTAAAGTATGAACTTT-ATTTTCTTAATGGTGATATTCAAGACATTTTCAAA
1 GATATCTAG-GTATTAAAGTATGAA-TTTCATTTTCTTAATGGAAATATTCAAAACATTTACAAA
* * *
11435241 ATCATTCAGTGGTGATATATGAGTTTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATTTT
64 ATCACTCAGTGGTGATATACGAGTCTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATTTT
*
11435306 CTCAATGGTGATATCTAAGTATTAAAGTATGAATTTCATTTTCTTGATGGT
129 CTCAATGGTGATATCCAAGTATTAAAGTATGAATTTCATTTTCTTGATGGT
11435357 GATAT
1 GATAT
11435362 TCAAGACATT
Statistics
Matches: 163, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
177 1 0.01
178 106 0.65
179 56 0.34
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (179 bp):
GATATCTAGGTATTAAAGTATGAATTTCATTTTCTTAATGGAAATATTCAAAACATTTACAAAAT
CACTCAGTGGTGATATACGAGTCTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATTTTCT
CAATGGTGATATCCAAGTATTAAAGTATGAATTTCATTTTCTTGATGGT
Found at i:11435409 original size:137 final size:137
Alignment explanation
Indices: 11435174--11435453 Score: 481
Period size: 137 Copynumber: 2.0 Consensus size: 137
11435164 ATTTTCTTGG
*
11435174 TGGTGATATCTGAGTATTAAAGTATGAACTTTATTTTCTTAATGGTGATATTCAAGACATTTTCA
1 TGGTGATATCTAAGTATTAAAGTATGAACTTTATTTTCTTAATGGTGATATTCAAGACATTTTCA
*
11435239 AAATCATTCAGTGGTGATATATGAGTTTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATT
66 AAATCACTCAGTGGTGATATATGAGTTTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATT
11435304 TTCTCAA
131 TTCTCAA
*
11435311 TGGTGATATCTAAGTATTAAAGTATGAA-TTTCATTTTCTTGATGGTGATATTCAAGACATTTTC
1 TGGTGATATCTAAGTATTAAAGTATGAACTTT-ATTTTCTTAATGGTGATATTCAAGACATTTTC
* *
11435375 AAAATCACTCAGTGGTGATATATGAGTTTAAAGTTTGAATTTGCATTCTTTCTCTATATTTGCAT
65 AAAATCACTCAGTGGTGATATATGAGTTTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCAT
*
11435440 TTTCTTAA
130 TTTCTCAA
*
11435448 TAGTGA
1 TGGTGA
11435454 CATCCAAATG
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
136 3 0.02
137 132 0.98
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (137 bp):
TGGTGATATCTAAGTATTAAAGTATGAACTTTATTTTCTTAATGGTGATATTCAAGACATTTTCA
AAATCACTCAGTGGTGATATATGAGTTTAAAGTTTGAATTTACATTCTTTCTCTACATTTGCATT
TTCTCAA
Found at i:11435667 original size:99 final size:98
Alignment explanation
Indices: 11435473--11435772 Score: 321
Period size: 99 Copynumber: 3.0 Consensus size: 98
11435463 GTTAAAAAAA
* * * * * * *
11435473 AAATTATTTGCATTTTCTCGGTGGTGATATTTGAATGTTAAAAAAATCATTTGTATTTTCTTGAT
1 AAATTATTTGCATATTCTCGGTGGTGATATTCGAGTGTT-AAAAATTGAATTG-ATTTTCTCGAT
** * *
11435538 AATGATATTCGAGTTTCTTTCGATGGCAATATCTG
64 GGTGATATTCGAGTTTCCTTCGATGGCAATATCCG
* * *
11435573 AAATTATTTGCCTATTCTCGGTGGTGATATCCGAGTGTTAAAACTTGAATTGCATTTTCTCGATG
1 AAATTATTTGCATATTCTCGGTGGTGATATTCGAGTGTTAAAAATTGAATTG-ATTTTCTCGATG
11435638 GTGATATTCGAGTTTCCTTCGATGGCAATATCCG
65 GTGATATTCGAGTTTCCTTCGATGGCAATATCCG
* * * ** * ** *
11435672 AAATCATTTGCATCTTTTCAATGGTGATATTGGAGTGTTAAAGTTTGAATTAGATTTTCTCAATG
1 AAATTATTTGCATATTCTCGGTGGTGATATTCGAGTGTTAAAAATTGAATT-GATTTTCTCGATG
* * * *
11435737 GTAATATTCGAGTTTTCTTCGGTGGTAATATCCG
65 GTGATATTCGAGTTTCCTTCGATGGCAATATCCG
11435771 AA
1 AA
11435773 GTCATTCACA
Statistics
Matches: 169, Mismatches: 30, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
99 134 0.79
100 35 0.21
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (98 bp):
AAATTATTTGCATATTCTCGGTGGTGATATTCGAGTGTTAAAAATTGAATTGATTTTCTCGATGG
TGATATTCGAGTTTCCTTCGATGGCAATATCCG
Found at i:11435798 original size:99 final size:100
Alignment explanation
Indices: 11435542--11435801 Score: 287
Period size: 99 Copynumber: 2.6 Consensus size: 100
11435532 CTTGATAATG
* * * ** *
11435542 ATATTCGAGTTTCTTTCGATGGCAATATCTGAAATTATTTGC--CTATTCTCGGTGGTGATATCC
1 ATATTCGAGTTTCCTTCGATGGCAATATCCGAAATCATTCACATCT-TTCTCGATGGTGATATCC
* *
11435605 GAGTGTTAAAACTTGAATTGCATTTTCTCGATGGTG
65 GAGTGTTAAAACTTGAATTGCATTTTCTCAATGGTA
** * **
11435641 ATATTCGAGTTTCCTTCGATGGCAATATCCGAAATCATTTGCATCTTT-TCAATGGTGATATTGG
1 ATATTCGAGTTTCCTTCGATGGCAATATCCGAAATCATTCACATCTTTCTCGATGGTGATATCCG
**
11435705 AGTGTTAAAGTTTGAATTAG-ATTTTCTCAATGGTA
66 AGTGTTAAAACTTGAATT-GCATTTTCTCAATGGTA
* * * * *
11435740 ATATTCGAGTTTTCTTCGGTGGTAATATCCGAAGTCATTCACAT-TTTCTCGATCGTGATATC
1 ATATTCGAGTTTCCTTCGATGGCAATATCCGAAATCATTCACATCTTTCTCGATGGTGATATC
11435802 TGAGATCATT
Statistics
Matches: 137, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
98 3 0.02
99 129 0.94
100 3 0.02
101 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (100 bp):
ATATTCGAGTTTCCTTCGATGGCAATATCCGAAATCATTCACATCTTTCTCGATGGTGATATCCG
AGTGTTAAAACTTGAATTGCATTTTCTCAATGGTA
Found at i:11436073 original size:6 final size:7
Alignment explanation
Indices: 11436053--11436091 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
11436043 ATTTATTTAT
11436053 TTTTTCTC
1 TTTTT-TC
11436061 TTTTTTC
1 TTTTTTC
11436068 -TTTTTC
1 TTTTTTC
11436074 TTTTTTC
1 TTTTTTC
11436081 TTTTTTC
1 TTTTTTC
11436088 TTTT
1 TTTT
11436092 CTGCCAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 19 0.63
8 5 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:11436082 original size:20 final size:21
Alignment explanation
Indices: 11436053--11436091 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
11436043 ATTTATTTAT
11436053 TTTTTCTCTTTTTTCTTTTTC
1 TTTTTCTCTTTTTTCTTTTTC
11436074 TTTTT-TCTTTTTTCTTTT
1 TTTTTCTCTTTTTTCTTTT
11436092 CTGCCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTCTCTTTTTTCTTTTTC
Found at i:11436310 original size:21 final size:21
Alignment explanation
Indices: 11436266--11436320 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
11436256 CAAAAAAAAT
*
11436266 AAAAAAAGAAAACCTTAGCAA
1 AAAAAAAAAAAACCTTAGCAA
*
11436287 AAAAAAAAAAAACCTT-GCTGA
1 AAAAAAAAAAAACCTTAGC-AA
*
11436308 AAAACAAAAAAAC
1 AAAAAAAAAAAAC
11436321 TACTAGATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.69, C:0.15, G:0.07, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAAAACCTTAGCAA
Found at i:11436411 original size:22 final size:23
Alignment explanation
Indices: 11436355--11436408 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
11436345 AAAAGCCAAG
* *
11436355 AAAAC-CAAAACCAAAACAAAAA
1 AAAACACAAACCCAAAAAAAAAA
*
11436377 ACAACACAAACCCAAAAAAAAAA
1 AAAACACAAACCCAAAAAAAAAA
11436400 AAAACACAA
1 AAAACACAA
11436409 CCCCTTGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAACACAAACCCAAAAAAAAAA
Found at i:11436984 original size:23 final size:22
Alignment explanation
Indices: 11436944--11436986 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11436934 TATTGAATTT
11436944 TTTATATATTTCTATTATTTAA
1 TTTATATATTTCTATTATTTAA
* *
11436966 TTTATGATTTTTCTCTTATTT
1 TTTAT-ATATTTCTATTATTT
11436987 TTATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATATATTTCTATTATTTAA
Found at i:11438765 original size:41 final size:41
Alignment explanation
Indices: 11438683--11438770 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
11438673 TTATACTTTT
** ** *
11438683 TATTATGATAATAGATGATGTTTACTTTTTTAAAGATCATC
1 TATTATGATAATAGATGACATTTACTTTTCAAAAGACCATC
*
11438724 TATTATGATAATAGATGGCATTTACTTTCTCAAAAG-CCATC
1 TATTATGATAATAGATGACATTTACTTT-TCAAAAGACCATC
11438765 TATTAT
1 TATTAT
11438771 ATTATAAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 35 0.88
42 5 0.12
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (41 bp):
TATTATGATAATAGATGACATTTACTTTTCAAAAGACCATC
Found at i:11441480 original size:190 final size:189
Alignment explanation
Indices: 11441135--11441519 Score: 531
Period size: 190 Copynumber: 2.0 Consensus size: 189
11441125 ACCATTAAGT
* * * *
11441135 GATCTAATTTTAATTGCTGATTTCTTTGCTAAATGTCTTGAATACATAATAGGATATGCACAAAA
1 GATCTAATTGTAATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGGATATGCACAAAA
* * * *
11441200 ATTTAGTTTCTTAAGATCTTATATAGTTCTTTGCTCAAATCAAAGAGTTTTGTTAAGAAGGAAAA
66 ATTTAATTTCTTAAGATCTTATATAATTCTTGGCTCAAATCAAAGAG-TTTGTTAAAAAGGAAAA
* * *
11441265 AGGAGGGCATATGGGGAAGAGAAGACTGGGGCAATAACAAGTTGAAAGAAACAAAGTCAAC
130 AGAAGGGCATAAGGGGAAGAGAAGACTAGGGCAATAACAAGTTGAAAGAAAC-AAGTCAAC
* * * *
11441326 GATCTAGTTGTAATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGTATTTGCAGATAA
1 GATCTAATTGTAATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGGATATGCACA-AA
* * * *
11441391 ATTTTAATTTGTTAAGATCTTATTTAATT-TTGGGTTCAAATCAAAGAG-TTGTTAAAAAGGAAA
65 AATTTAATTTCTTAAGATCTTATATAATTCTT-GGCTCAAATCAAAGAGTTTGTTAAAAAGGAAA
* *
11441454 AAGAAGGGCATAAGGGGAAGAGAAGACTAGGGCAATAACAAGTTGAGAGAAACAAGTCAAT
129 AAGAAGGGCATAAGGGGAAGAGAAGACTAGGGCAATAACAAGTTGAAAGAAACAAGTCAAC
11441515 GATCT
1 GATCT
11441520 TTCAATAGAA
Statistics
Matches: 171, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
189 12 0.07
190 63 0.37
191 56 0.33
192 40 0.23
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (189 bp):
GATCTAATTGTAATTGCCGATTTCTCTGCTAAATGTCCTGAATACATAATAGGATATGCACAAAA
ATTTAATTTCTTAAGATCTTATATAATTCTTGGCTCAAATCAAAGAGTTTGTTAAAAAGGAAAAA
GAAGGGCATAAGGGGAAGAGAAGACTAGGGCAATAACAAGTTGAAAGAAACAAGTCAAC
Found at i:11442869 original size:18 final size:18
Alignment explanation
Indices: 11442842--11442877 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11442832 ATTAACTTAT
*
11442842 TTTTATAATAAATAAAAA
1 TTTTAAAATAAATAAAAA
*
11442860 TTTTAAAATAATTAAAAA
1 TTTTAAAATAAATAAAAA
11442878 ATAATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAATAAATAAAAA
Found at i:11442896 original size:15 final size:15
Alignment explanation
Indices: 11442876--11442905 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11442866 AATAATTAAA
11442876 AAATAATATAATATT
1 AAATAATATAATATT
11442891 AAATAATATAATATT
1 AAATAATATAATATT
11442906 TATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATAATATAATATT
Found at i:11451273 original size:18 final size:18
Alignment explanation
Indices: 11451249--11451286 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11451239 TTAAAAATTT
11451249 TTAAAAATTCTAAAAAAAA
1 TTAAAAATT-TAAAAAAAA
*
11451268 TTAAAAATTTCAAAAAAA
1 TTAAAAATTTAAAAAAAA
11451286 T
1 T
11451287 CTCAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAATTTAAAAAAAA
Found at i:11451283 original size:29 final size:28
Alignment explanation
Indices: 11451213--11451293 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 28
11451203 TCTTAAAAAG
* * *
11451213 AAAAATTACAAAACATTCTAAACAAATT
1 AAAAATTTCAAAAAATTCTAAAAAAATT
**
11451241 AAAAATTTTTAAAAATTCTAAAAAAAATT
1 AAAAATTTCAAAAAATTCT-AAAAAAATT
* *
11451270 AAAAATTTCAAAAAAATCTCAAAA
1 AAAAATTTCAAAAAATTCTAAAAA
11451294 GTTCAAATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (28 bp):
AAAAATTTCAAAAAATTCTAAAAAAATT
Found at i:11451293 original size:19 final size:18
Alignment explanation
Indices: 11451261--11451300 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11451251 AAAAATTCTA
*
11451261 AAAAAAATTAAAAATTTC
1 AAAAAAATTAAAAAGTTC
*
11451279 AAAAAAATCTCAAAAGTTC
1 AAAAAAAT-TAAAAAGTTC
11451298 AAA
1 AAA
11451301 TTTTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAAAATTAAAAAGTTC
Found at i:11451312 original size:29 final size:28
Alignment explanation
Indices: 11451279--11451355 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
11451269 TAAAAATTTC
11451279 AAAAAAATCTCAAAAGTTCAAATT-TTAA
1 AAAAAAATCT-AAAAGTTCAAATTATTAA
* * *
11451307 ATAAAAAAACTAAAAGTTTAAATTATTCA
1 A-AAAAAATCTAAAAGTTCAAATTATTAA
11451336 AAAAAAAT-TAAGAA-TTCAAA
1 AAAAAAATCTAA-AAGTTCAAA
11451356 AATATTATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 8 0.20
28 21 0.51
29 12 0.29
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (28 bp):
AAAAAAATCTAAAAGTTCAAATTATTAA
Found at i:11451313 original size:28 final size:29
Alignment explanation
Indices: 11451279--11451342 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
11451269 TAAAAATTTC
11451279 AAAAAAATCTCAAAAGTTCAAATT-TT-AA
1 AAAAAAATCT-AAAAGTTCAAATTATTCAA
* *
11451307 ATAAAAAAACTAAAAGTTTAAATTATTCAA
1 A-AAAAAATCTAAAAGTTCAAATTATTCAA
11451337 AAAAAA
1 AAAAAA
11451343 TTAAGAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 13 0.42
29 15 0.48
30 3 0.10
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (29 bp):
AAAAAAATCTAAAAGTTCAAATTATTCAA
Found at i:11451376 original size:21 final size:20
Alignment explanation
Indices: 11451366--11451418 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
11451356 AATATTATGA
11451366 AAATTTTCAAAAATTCTAAC
1 AAATTTTCAAAAATTCTAAC
11451386 AAATTTTCAAAAATTCTAA-
1 AAATTTTCAAAAATTCTAAC
*
11451405 AATAATTTCAAAAA
1 AA-ATTTTCAAAAA
11451419 ATTTTAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTTTCAAAAATTCTAAC
Found at i:11451380 original size:10 final size:10
Alignment explanation
Indices: 11451365--11451423 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
11451355 AAATATTATG
11451365 AAAATTTTCA
1 AAAATTTTCA
*
11451375 AAAATTCT-A
1 AAAATTTTCA
11451384 ACAAATTTTCA
1 A-AAATTTTCA
*
11451395 AAAATTCT-A
1 AAAATTTTCA
*
11451404 AAATAATTTCAA
1 AAA-ATTTTC-A
11451416 AAAATTTT
1 AAAATTTT
11451424 AGAAAATGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
9 6 0.16
10 22 0.58
11 6 0.16
12 4 0.11
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTTTCA
Found at i:11451631 original size:19 final size:19
Alignment explanation
Indices: 11451609--11451649 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
11451599 AACGACTTCC
11451609 AAATTTTAAAA-AATCAAAA
1 AAATTTTAAAAGAAT-AAAA
11451628 AAA-TTTAAAAGAATAAAA
1 AAATTTTAAAAGAATAAAA
11451646 AAAT
1 AAAT
11451650 GACGGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATTTTAAAAGAATAAAA
Found at i:11451720 original size:15 final size:15
Alignment explanation
Indices: 11451679--11451721 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
11451669 AAAAATTTGT
*
11451679 TAAAATTAAAAAAAC
1 TAAAATAAAAAAAAC
11451694 TAAAAGTAAAAAAAAC
1 TAAAA-TAAAAAAAAC
*
11451710 TAAAATCAAAAA
1 TAAAATAAAAAA
11451722 TCAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (15 bp):
TAAAATAAAAAAAAC
Found at i:11452179 original size:20 final size:20
Alignment explanation
Indices: 11452156--11452195 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11452146 ATTTTTAATT
*
11452156 TTTTTAATAAGTTTTAAAAA
1 TTTTTAATAACTTTTAAAAA
11452176 TTTTTAATAACTTTTAAAAA
1 TTTTTAATAACTTTTAAAAA
11452196 ATTAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTTAATAACTTTTAAAAA
Found at i:11452210 original size:10 final size:10
Alignment explanation
Indices: 11452197--11452232 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
11452187 TTTTAAAAAA
11452197 TTAGAATTTT
1 TTAGAATTTT
*
11452207 TTAGAATTGT
1 TTAGAATTTT
11452217 TTAGAATTTT
1 TTAGAATTTT
*
11452227 TAAGAA
1 TTAGAA
11452233 ATTTGAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (10 bp):
TTAGAATTTT
Found at i:11453705 original size:3 final size:3
Alignment explanation
Indices: 11453697--11453741 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11453687 GATTATAACA
11453697 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11453742 TTTAGCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11455070 original size:20 final size:19
Alignment explanation
Indices: 11455031--11455098 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
11455021 TTCCACTCAA
*
11455031 TCATTTATTTCATTTCTTTTT
1 TCATTT-TTTCCTTT-TTTTT
11455052 TCATTTTTT-CTTCTTTTTT
1 TCATTTTTTCCTT-TTTTTT
*
11455071 TCCTTTTTTCCTTTTTTTTT
1 TCATTTTTTCC-TTTTTTTT
11455091 TCATTTTT
1 TCATTTTT
11455099 CTTTCTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 15 0.37
20 18 0.44
21 8 0.20
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TCATTTTTTCCTTTTTTTT
Found at i:11455071 original size:19 final size:20
Alignment explanation
Indices: 11455047--11455098 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
11455037 ATTTCATTTC
11455047 TTTTTTCATTTTTT-CTTCT
1 TTTTTTCATTTTTTCCTTCT
* *
11455066 TTTTTTCCTTTTTTCCTTTT
1 TTTTTTCATTTTTTCCTTCT
11455086 TTTTTTCATTTTT
1 TTTTTTCATTTTT
11455099 CTTTCTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCATTTTTTCCTTCT
Found at i:11455099 original size:19 final size:20
Alignment explanation
Indices: 11455047--11455106 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
11455037 ATTTCATTTC
*
11455047 TTTTTTCATTTTTTCTTCTT
1 TTTTTTCATTTTTCCTTCTT
* *
11455067 TTTTTCCTTTTTTCCTT-TT
1 TTTTTTCATTTTTCCTTCTT
*
11455086 TTTTTTCATTTTTCTTTCTT
1 TTTTTTCATTTTTCCTTCTT
11455106 T
1 T
11455107 CATTTCTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCATTTTTCCTTCTT
Found at i:11467984 original size:23 final size:22
Alignment explanation
Indices: 11467952--11467999 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
11467942 AAAGAATTAT
11467952 TTTCCTCAAAATGTTATTTTAG
1 TTTCCTCAAAATGTTATTTTAG
11467974 TTTCCATCAAAATGTTATTTTAG
1 TTTCC-TCAAAATGTTATTTTAG
11467997 TTT
1 TTT
11468000 TATTTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.52
Consensus pattern (22 bp):
TTTCCTCAAAATGTTATTTTAG
Found at i:11469690 original size:16 final size:14
Alignment explanation
Indices: 11469674--11469709 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
11469664 TATTTTTATT
11469674 TTTATAAAATGTAA
1 TTTATAAAATGTAA
11469688 TTTATAAAATGT-A
1 TTTATAAAATGTAA
11469701 TTTA-AAAAT
1 TTTATAAAAT
11469710 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.23
13 5 0.23
14 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TTTATAAAATGTAA
Found at i:11470453 original size:2 final size:2
Alignment explanation
Indices: 11470448--11470486 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11470438 AAACAAACTT
11470448 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11470487 AAAGGAGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.