Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 106 of 125
Found at i:32152490 original size:18 final size:19
Alignment explanation
Indices: 32152455--32152515 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
32152445 AAATTTTATC
32152455 TAAAATTATTAAAATAATA
1 TAAAATTATTAAAATAATA
32152474 TAAAA-TATTATATTAATAATA
1 TAAAATTATTA-A--AATAATA
*
32152495 TTCAAATTA-TAAAATAA-A
1 -TAAAATTATTAAAATAATA
32152513 TAA
1 TAA
32152516 TTTTCAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
17 2 0.06
18 6 0.17
19 11 0.31
21 8 0.23
22 6 0.17
23 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATTATTAAAATAATA
Found at i:32158659 original size:2 final size:2
Alignment explanation
Indices: 32158652--32158696 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
32158642 TAAATCTCAT
32158652 TA TA TA TA TA TA TA TA TA TA 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 TA
32158694 TA T
1 TA T
32158697 TTTGTATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32158748 original size:20 final size:20
Alignment explanation
Indices: 32158720--32158761 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32158710 TGTATAGAAA
32158720 AATAATTA-TACTTTTATAAT
1 AATAATTATTACTTTTA-AAT
* *
32158740 AATATTTATTATTTTTAAAT
1 AATAATTATTACTTTTAAAT
32158760 AA
1 AA
32158762 AATATAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AATAATTATTACTTTTAAAT
Found at i:32159289 original size:15 final size:16
Alignment explanation
Indices: 32159259--32159352 Score: 52
Period size: 15 Copynumber: 5.6 Consensus size: 16
32159249 AATATTTTTA
*
32159259 AAAATATTTTATATAT
1 AAAATATTTTAAATAT
32159275 AAAATA-TTTAAATAT
1 AAAATATTTTAAATAT
*
32159290 ATTAAATGA-ATTAAAT-T
1 A--AAAT-ATTTTAAATAT
*
32159307 -AAATAATTTTGAATAT
1 AAAAT-ATTTTAAATAT
32159323 AAAAATATTAATTAATTATAT
1 -AAAATATT--TTAA--ATAT
32159344 AAAATATTT
1 AAAATATTT
32159353 ATTAATAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 5 0.08
15 14 0.23
16 7 0.11
17 8 0.13
18 12 0.20
19 3 0.05
20 8 0.13
21 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
AAAATATTTTAAATAT
Found at i:32159303 original size:18 final size:17
Alignment explanation
Indices: 32159269--32159349 Score: 51
Period size: 17 Copynumber: 4.7 Consensus size: 17
32159259 AAAATATTTT
*
32159269 ATATATAAAATATTTAA
1 ATATATAAAATAATTAA
*
32159286 ATATATTAAATGAATTAA
1 ATATATAAAAT-AATTAA
* *
32159304 AT-TA-AATAAT-TTTGA
1 ATATATAA-AATAATTAA
*
32159319 ATATAAAAATATTAATTAA
1 ATATATAAA-A-TAATTAA
*
32159338 TTATATAAAATA
1 ATATATAAAATA
32159350 TTTATTAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
15 5 0.10
16 4 0.08
17 20 0.42
18 9 0.19
19 10 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATATAAAATAATTAA
Found at i:32159349 original size:20 final size:21
Alignment explanation
Indices: 32159319--32159358 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
32159309 ATAATTTTGA
32159319 ATATAAAAATATTAATTAATT
1 ATATAAAAATATTAATTAATT
*
32159340 ATAT-AAAATATTTATTAAT
1 ATATAAAAATATTAATTAAT
32159359 AAACTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATAAAAATATTAATTAATT
Found at i:32171701 original size:12 final size:12
Alignment explanation
Indices: 32171686--32171714 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32171676 CAAAAAAAAA
32171686 AAAAAGAAAAGG
1 AAAAAGAAAAGG
32171698 AAAAAGAAAAGG
1 AAAAAGAAAAGG
32171710 AAAAA
1 AAAAA
32171715 ATCAGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:32176355 original size:29 final size:29
Alignment explanation
Indices: 32176313--32176372 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
32176303 ACATAAGAAT
32176313 TTATCTTGCTAAAGTTCGTCATCCCTCCC
1 TTATCTTGCTAAAGTTCGTCATCCCTCCC
32176342 TTATCTTGCTAAAGTTCGTCATCCCTCCC
1 TTATCTTGCTAAAGTTCGTCATCCCTCCC
32176371 TT
1 TT
32176373 TGACACAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.10, T:0.40
Consensus pattern (29 bp):
TTATCTTGCTAAAGTTCGTCATCCCTCCC
Found at i:32186307 original size:71 final size:71
Alignment explanation
Indices: 32186191--32186333 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
32186181 TAGAATGCAA
*
32186191 AAATGTCAGGCCCTTACAGAAACAGAACAGTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
1 AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
32186256 GTTCTC
66 GTTCTC
32186262 AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
1 AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
32186327 GTTCTC
66 GTTCTC
32186333 A
1 A
32186334 TTGTTATTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (71 bp):
AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
GTTCTC
Found at i:32190289 original size:14 final size:15
Alignment explanation
Indices: 32190258--32190290 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32190248 AGTGTAGTAA
32190258 ATTTTAGTATTATAT
1 ATTTTAGTATTATAT
*
32190273 ATTTTTGTATT-TAT
1 ATTTTAGTATTATAT
32190287 ATTT
1 ATTT
32190291 AAATATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
ATTTTAGTATTATAT
Found at i:32190445 original size:18 final size:18
Alignment explanation
Indices: 32190422--32190456 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32190412 TTACGAATAA
32190422 AAATAATAATTATATTTG
1 AAATAATAATTATATTTG
* *
32190440 AAATAATTATTTTATTT
1 AAATAATAATTATATTT
32190457 TATAATATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATAATAATTATATTTG
Found at i:32190548 original size:14 final size:15
Alignment explanation
Indices: 32190513--32190541 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32190503 AATATTTGAC
32190513 ATAAAAATATTATAT
1 ATAAAAATATTATAT
32190528 ATAAAAATA-TATAT
1 ATAAAAATATTATAT
32190542 CAAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAAATATTATAT
Found at i:32192427 original size:12 final size:12
Alignment explanation
Indices: 32192410--32192436 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32192400 TGCATAGCTT
32192410 AAAGATCAATAA
1 AAAGATCAATAA
32192422 AAAGATCAATAA
1 AAAGATCAATAA
32192434 AAA
1 AAA
32192437 CAACCTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAGATCAATAA
Found at i:32193498 original size:18 final size:18
Alignment explanation
Indices: 32193475--32193512 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32193465 TCACTATCTC
*
32193475 AAAATTTCAAA-AAACATA
1 AAAATTACAAAGAAA-ATA
32193493 AAAATTACAAAGAAAATA
1 AAAATTACAAAGAAAATA
32193511 AA
1 AA
32193513 TTTAATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAATTACAAAGAAAATA
Found at i:32194636 original size:28 final size:28
Alignment explanation
Indices: 32194596--32194723 Score: 219
Period size: 28 Copynumber: 4.7 Consensus size: 28
32194586 GGAATCATTG
32194596 GGTTTACTTCTCGCGCTTCATGAGTGGT
1 GGTTTACTTCTCGCGCTTCATGAGTGGT
32194624 GGTTTACTTCTCGCGCTTC---A-TGGT
1 GGTTTACTTCTCGCGCTTCATGAGTGGT
*
32194648 GGTTTAATTCTCGCGCTTCATGAGTGGT
1 GGTTTACTTCTCGCGCTTCATGAGTGGT
32194676 GGTTTACTTCTCGCGCTTCATGAGTGGT
1 GGTTTACTTCTCGCGCTTCATGAGTGGT
32194704 GGTTTACTTCTCGCGCTTCA
1 GGTTTACTTCTCGCGCTTCA
32194724 CGGTAAGCAG
Statistics
Matches: 94, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
24 22 0.23
25 1 0.01
27 1 0.01
28 70 0.74
ACGTcount: A:0.11, C:0.23, G:0.27, T:0.40
Consensus pattern (28 bp):
GGTTTACTTCTCGCGCTTCATGAGTGGT
Found at i:32194674 original size:52 final size:54
Alignment explanation
Indices: 32194596--32194723 Score: 215
Period size: 52 Copynumber: 2.4 Consensus size: 54
32194586 GGAATCATTG
32194596 GGTTTACTTCTCGCGCTTCATGAGTGGTGGTTTACTTCTCGCGCTTC-A-TGGT
1 GGTTTACTTCTCGCGCTTCATGAGTGGTGGTTTACTTCTCGCGCTTCAAGTGGT
*
32194648 GGTTTAATTCTCGCGCTTCATGAGTGGTGGTTTACTTCTCGCGCTTCATGAGTGGT
1 GGTTTACTTCTCGCGCTTCATGAGTGGTGGTTTACTTCTCGCGCTTCA--AGTGGT
32194704 GGTTTACTTCTCGCGCTTCA
1 GGTTTACTTCTCGCGCTTCA
32194724 CGGTAAGCAG
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
52 46 0.66
55 1 0.01
56 23 0.33
ACGTcount: A:0.11, C:0.23, G:0.27, T:0.40
Consensus pattern (54 bp):
GGTTTACTTCTCGCGCTTCATGAGTGGTGGTTTACTTCTCGCGCTTCAAGTGGT
Found at i:32195129 original size:6 final size:6
Alignment explanation
Indices: 32195118--32195154 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
32195108 GAGTAGAAGT
32195118 GGTCGA GGTCGA GGTCGA GGTCGA GGTCGA GGTCGA G
1 GGTCGA GGTCGA GGTCGA GGTCGA GGTCGA GGTCGA G
32195155 CCATCGACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (6 bp):
GGTCGA
Found at i:32196437 original size:18 final size:17
Alignment explanation
Indices: 32196416--32196456 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
32196406 TAATGTGATT
32196416 AAATTACATAATATATAA
1 AAATTACATAATAT-TAA
*
32196434 AAATAACATAATATTAA
1 AAATTACATAATATTAA
*
32196451 ATATTA
1 AAATTA
32196457 AAACTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTACATAATATTAA
Found at i:32197320 original size:22 final size:21
Alignment explanation
Indices: 32197283--32197354 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
32197273 ACATTAAAAA
32197283 ATATAAAAA-TAGAAATAAAT
1 ATATAAAAATTAGAAATAAAT
*
32197303 ATATAAAAATTTAGAAATATAT
1 ATATAAAAA-TTAGAAATAAAT
* *
32197325 ATATATATATCCTAGAAA-AAAT
1 ATATAAAAAT--TAGAAATAAAT
32197347 -TATAAAAA
1 ATATAAAAA
32197355 ACACGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 9 0.21
21 7 0.17
22 20 0.48
23 6 0.14
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (21 bp):
ATATAAAAATTAGAAATAAAT
Found at i:32197629 original size:22 final size:22
Alignment explanation
Indices: 32197579--32197626 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
32197569 TATTTTTAAT
**
32197579 TTTTAAAATTTATAAGTATATA
1 TTTTAAAATTTATAAAAATATA
32197601 TTTTAAAATTTATAAAAATTATA
1 TTTTAAAATTTATAAAAA-TATA
32197624 TTT
1 TTT
32197627 AAACTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTAAAATTTATAAAAATATA
Found at i:32197675 original size:30 final size:30
Alignment explanation
Indices: 32197632--32197690 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
32197622 TATTTAAACT
*
32197632 TTTTTTATTTTTTAA-AATATTATATATGA
1 TTTTTTATTTTTTAACAATAATATATATGA
32197661 TTTTTTATATTTTTAATCAATAATATATAT
1 TTTTTTAT-TTTTTAA-CAATAATATATAT
32197691 ATATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 7 0.27
32 11 0.42
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTTATTTTTTAACAATAATATATATGA
Found at i:32197690 original size:2 final size:2
Alignment explanation
Indices: 32197683--32197738 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
32197673 TTAATCAATA
32197683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32197725 AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT A
32197739 CTATTTTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32198408 original size:168 final size:168
Alignment explanation
Indices: 32198130--32198465 Score: 663
Period size: 168 Copynumber: 2.0 Consensus size: 168
32198120 AAGAAAGTTT
32198130 AGAGGTAACCTTGAACCCAACAAGTGGTTTCAGTGGTAAAGAGGATGCTGTTTATCCTAAAAAAT
1 AGAGGTAACCTTGAACCCAACAAGTGGTTTCAGTGGTAAAGAGGATGCTGTTTATCCTAAAAAAT
32198195 TCAGGTTCGAGCACCTGTGTATATAAGGGTGTGTGCAAGGTTGATGGTCAAAAAAGGCTCAAGAG
66 TCAGGTTCGAGCACCTGTGTATATAAGGGTGTGTGCAAGGTTGATGGTCAAAAAAGGCTCAAGAG
32198260 TACAATTAGGACCATTTTGACAAAACATGCAAACGTTA
131 TACAATTAGGACCATTTTGACAAAACATGCAAACGTTA
32198298 AGAGGTAACCTTGAACCCAACAAGTGGTTTCAGTGGTAAAGAGGATGCTGTTTATCCTAAAAAAT
1 AGAGGTAACCTTGAACCCAACAAGTGGTTTCAGTGGTAAAGAGGATGCTGTTTATCCTAAAAAAT
32198363 TCAGGTTCGAGCACCTGTGTATATAAGGGTGTGTGCAAGGTTGATGGTCAAAAAAGGCTCAAGAG
66 TCAGGTTCGAGCACCTGTGTATATAAGGGTGTGTGCAAGGTTGATGGTCAAAAAAGGCTCAAGAG
*
32198428 TACAATTAGGACCATTTTGACAAAATATGCAAACGTTA
131 TACAATTAGGACCATTTTGACAAAACATGCAAACGTTA
32198466 GTGGTCAAAT
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (168 bp):
AGAGGTAACCTTGAACCCAACAAGTGGTTTCAGTGGTAAAGAGGATGCTGTTTATCCTAAAAAAT
TCAGGTTCGAGCACCTGTGTATATAAGGGTGTGTGCAAGGTTGATGGTCAAAAAAGGCTCAAGAG
TACAATTAGGACCATTTTGACAAAACATGCAAACGTTA
Found at i:32201060 original size:68 final size:68
Alignment explanation
Indices: 32200988--32201161 Score: 194
Period size: 68 Copynumber: 2.6 Consensus size: 68
32200978 GTCTTGGCGG
* * * *
32200988 ACTCTATTGGTTGTCATAGTCGAGCTAT-AGTCTTACACATTGTAACCCCATGTTTAATGTCCTA
1 ACTCTATTAGTTGCCATAGCCGAGCTATGA-TCTTACACATTGTAACACCATGTTTAATGTCCTA
32201052 ACAA
65 ACAA
* *
32201056 ACTCTGTTAGTTGCCATAGCCGAGCTATGATCTTACACCTTGTAACACCATGTTTAATG-CCATG
1 ACTCTATTAGTTGCCATAGCCGAGCTATGATCTTACACATTGTAACACCATGTTTAATGTCC-T-
* *
32201120 ATC-G
64 AACAA
* *
32201124 ACTCTATTGGTTGCCATAGCCAAGGC-ATGATCTTACAC
1 ACTCTATTAGTTGCCATAGCCGA-GCTATGATCTTACAC
32201162 TTGATACCTC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
67 2 0.02
68 84 0.92
69 5 0.05
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (68 bp):
ACTCTATTAGTTGCCATAGCCGAGCTATGATCTTACACATTGTAACACCATGTTTAATGTCCTAA
CAA
Found at i:32202701 original size:3 final size:3
Alignment explanation
Indices: 32202695--32202724 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32202685 AATAATAATA
32202695 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32202725 TTGTGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32203116 original size:19 final size:16
Alignment explanation
Indices: 32203088--32203149 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 16
32203078 TCAAATTTAA
32203088 ATAATTTTTTAATTGTTT
1 ATAATTTTTT-ATT-TTT
32203106 ATAACTTTTTTATTTTT
1 ATAA-TTTTTTATTTTT
32203123 ATATATTATTTTAACTTTTT
1 ATA-ATT-TTTT-A-TTTTT
*
32203143 AAAATTT
1 ATAATTT
32203150 ATAAGTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 8 0.21
18 13 0.34
19 10 0.26
20 7 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (16 bp):
ATAATTTTTTATTTTT
Found at i:32203193 original size:26 final size:26
Alignment explanation
Indices: 32203132--32203208 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
32203122 TATATATTAT
*
32203132 TTTAACTTTTTAAAA-TTTAT-AAGTA
1 TTTAA-TTTTTAAAATTTTATAAAATA
32203157 TTT-A-TTTTAAAATTTTATAAAATA
1 TTTAATTTTTAAAATTTTATAAAATA
* *
32203181 TTTAATTTTTAAACTTTTTTAAAATA
1 TTTAATTTTTAAAATTTTATAAAATA
32203207 TT
1 TT
32203209 ATATACAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
22 8 0.18
23 5 0.11
24 8 0.18
25 4 0.09
26 20 0.44
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (26 bp):
TTTAATTTTTAAAATTTTATAAAATA
Found at i:32203969 original size:27 final size:27
Alignment explanation
Indices: 32203927--32204006 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
32203917 TATCTAAATA
*
32203927 TTTAATATAATAATTTTTTTATTTTAAT
1 TTTAATTTAAT-ATTTTTTTATTTTAAT
*
32203955 TTTAATTTAATATTTTTTTATTTGAAT
1 TTTAATTTAATATTTTTTTATTTTAAT
32203982 TTTAATTTAATA-TTTTTTATTTTAA
1 TTTAATTTAATATTTTTTTATTTTAA
32204007 ATAAAATAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 12 0.24
27 27 0.55
28 10 0.20
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTAATTTAATATTTTTTTATTTTAAT
Found at i:32207540 original size:6 final size:6
Alignment explanation
Indices: 32207527--32207578 Score: 77
Period size: 6 Copynumber: 8.5 Consensus size: 6
32207517 TTCTATTTAT
* *
32207527 TTAAAA TAAAAA TATTAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA T-TAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
32207576 TTA
1 TTA
32207579 TTATATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:32207592 original size:12 final size:13
Alignment explanation
Indices: 32207545--32207604 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 13
32207535 AAAATATTAA
32207545 ATTAAAATTAAA-
1 ATTAAAATTAAAT
32207557 ATTAAAATTAAA-
1 ATTAAAATTAAAT
*
32207569 ATTAAAATTATTAT
1 ATTAAAATTA-AAT
*
32207583 ATTAAATATTTAGAT
1 ATTAAA-A-TTAAAT
32207598 ATTAAAA
1 ATTAAAA
32207605 AGCACTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
12 22 0.52
13 1 0.02
14 7 0.17
15 9 0.21
16 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (13 bp):
ATTAAAATTAAAT
Found at i:32208367 original size:27 final size:28
Alignment explanation
Indices: 32208319--32208371 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
32208309 ATAAAATTTT
**
32208319 AAAATAAATACATAAATTTTAAAAAATC
1 AAAATAAATACATAAAAATTAAAAAATC
*
32208347 AAAAT-AATATATAAAAATTAAAAAA
1 AAAATAAATACATAAAAATTAAAAAA
32208372 ATTATAAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAATAAATACATAAAAATTAAAAAATC
Found at i:32208377 original size:18 final size:19
Alignment explanation
Indices: 32208340--32208378 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32208330 ATAAATTTTA
*
32208340 AAAAATCAAAATAATATAT
1 AAAAATCAAAAAAATATAT
*
32208359 AAAAATTAAAAAAAT-TAT
1 AAAAATCAAAAAAATATAT
32208377 AA
1 AA
32208379 GCCATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATCAAAAAAATATAT
Found at i:32214842 original size:22 final size:22
Alignment explanation
Indices: 32214815--32214875 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
32214805 CAAATGAATG
*
32214815 GAGAGCATC-AAGGTGCTAAACA
1 GAGAGCA-CAAAGGTGCAAAACA
*
32214837 GAGAGCACAAATGTGCAAAACA
1 GAGAGCACAAAGGTGCAAAACA
*
32214859 GAGAGCACTAAACGTGC
1 GAGAGCAC-AAAGGTGC
32214876 TAATAATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.76
23 7 0.21
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (22 bp):
GAGAGCACAAAGGTGCAAAACA
Found at i:32215881 original size:32 final size:32
Alignment explanation
Indices: 32215840--32215904 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
32215830 CTTGTAGTAC
32215840 TTACAACAAAAGGTTGGTATGAGATGATTTCT
1 TTACAACAAAAGGTTGGTATGAGATGATTTCT
32215872 TTACAACAAAAGGTTGGTATGAGATGATTTCT
1 TTACAACAAAAGGTTGGTATGAGATGATTTCT
32215904 T
1 T
32215905 CTCTTCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (32 bp):
TTACAACAAAAGGTTGGTATGAGATGATTTCT
Found at i:32223964 original size:2 final size:2
Alignment explanation
Indices: 32223957--32223994 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32223947 CTTTATAAAA
32223957 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32223995 TGTTAGTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32228007 original size:3 final size:3
Alignment explanation
Indices: 32227999--32228023 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32227989 AAGGTTTTAC
32227999 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
32228024 TTGTGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:32238463 original size:71 final size:71
Alignment explanation
Indices: 32238347--32238489 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
32238337 TAGAATGCAA
* *
32238347 AAATGTCAGGCCCTTACAGAAACAGAATAGTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
1 AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
32238412 GTTCTC
66 GTTCTC
32238418 AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
1 AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
32238483 GTTCTC
66 GTTCTC
32238489 A
1 A
32238490 TTGTTATTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (71 bp):
AAATGTCAGGCCCTTACAGAAACAGAACACTGTCGTTTTAGCATATTGGGTATTAACTCTTTCTA
GTTCTC
Found at i:32242954 original size:16 final size:17
Alignment explanation
Indices: 32242932--32242975 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
32242922 CAAAAGAAAA
*
32242932 TAATAAAATTTATTTTG
1 TAATAAAATATATTTTG
32242949 -AATAAAATATATTTTG
1 TAATAAAATATATTTTG
32242965 TAATATAAATA
1 TAATA-AAATA
32242976 AGTCTTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 15 0.62
17 4 0.17
18 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TAATAAAATATATTTTG
Found at i:32254301 original size:23 final size:23
Alignment explanation
Indices: 32254270--32254404 Score: 137
Period size: 23 Copynumber: 5.9 Consensus size: 23
32254260 TGGGTAACGA
*
32254270 AGAGCACACACAGTGCTAAACAG
1 AGAGCACACACAGTGCTAATCAG
* * *
32254293 AGAGTACACAAAGTGTTAATCAG
1 AGAGCACACACAGTGCTAATCAG
* *
32254316 AGAGCACACGA-AGTGCTAAACGG
1 AGAGCACAC-ACAGTGCTAATCAG
* * * *
32254339 AGAGTACACAAAGTACTAATCAA
1 AGAGCACACACAGTGCTAATCAG
*
32254362 AGAGCACACACAGTGCTAATCGG
1 AGAGCACACACAGTGCTAATCAG
* *
32254385 AGAGAACACACTGTGCTAAT
1 AGAGCACACACAGTGCTAAT
32254405 GGGAGAGCGC
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
22 1 0.01
23 88 0.98
24 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (23 bp):
AGAGCACACACAGTGCTAATCAG
Found at i:32254404 original size:46 final size:46
Alignment explanation
Indices: 32254269--32254404 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
32254259 CTGGGTAACG
* *
32254269 AAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTGTTAATCA
1 AAGAGCACACACAGTGCTAAACGGAGAGTACACAAAGTGCTAATCA
* *
32254315 GAGAGCACACGA-AGTGCTAAACGGAGAGTACACAAAGTACTAATCA
1 AAGAGCACAC-ACAGTGCTAAACGGAGAGTACACAAAGTGCTAATCA
* * **
32254361 AAGAGCACACACAGTGCTAATCGGAGAGAACACACTGTGCTAAT
1 AAGAGCACACACAGTGCTAAACGGAGAGTACACAAAGTGCTAAT
32254405 GGGAGAGCGC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 76 0.97
47 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (46 bp):
AAGAGCACACACAGTGCTAAACGGAGAGTACACAAAGTGCTAATCA
Found at i:32254411 original size:69 final size:69
Alignment explanation
Indices: 32254265--32254393 Score: 159
Period size: 69 Copynumber: 1.9 Consensus size: 69
32254255 AGTGCTGGGT
* * * * * * *
32254265 AACGAAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTGTTAATCAGAGAGCACACGAAGT
1 AACGGAGAGCACACAAAGTACTAAACAAAGAGCACACAAAGTGCTAATCAGAGAGAACACGAAGT
32254330 GCTA
66 GCTA
* * * *
32254334 AACGGAGAGTACACAAAGTACTAATCAAAGAGCACACACAGTGCTAATCGGAGAGAACAC
1 AACGGAGAGCACACAAAGTACTAAACAAAGAGCACACAAAGTGCTAATCAGAGAGAACAC
32254394 ACTGTGCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 49 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (69 bp):
AACGGAGAGCACACAAAGTACTAAACAAAGAGCACACAAAGTGCTAATCAGAGAGAACACGAAGT
GCTA
Found at i:32256529 original size:31 final size:31
Alignment explanation
Indices: 32256433--32256521 Score: 160
Period size: 32 Copynumber: 2.8 Consensus size: 31
32256423 CTCATCTTTA
*
32256433 AGAGGCATTTGCATTGATTATATTTTTGCTT
1 AGAGGCATTTGCATTGATTATATTTTTACTT
32256464 AGAGGCATTTGCATTGTATTATATTTTTACTT
1 AGAGGCATTTGCATTG-ATTATATTTTTACTT
32256496 AGAGGCATTTGCATTGATTATATTTT
1 AGAGGCATTTGCATTGATTATATTTT
32256522 CATTTAGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 26 0.46
32 30 0.54
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (31 bp):
AGAGGCATTTGCATTGATTATATTTTTACTT
Found at i:32256785 original size:18 final size:18
Alignment explanation
Indices: 32256762--32256808 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
32256752 TTTGATATTT
32256762 TTTAATTTTATACTTAAA
1 TTTAATTTTATACTTAAA
*
32256780 TTTAATTTGATACTTAAA
1 TTTAATTTTATACTTAAA
*
32256798 TCTAATATTTA
1 TTTAAT-TTTA
32256809 AATTACTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTAATTTTATACTTAAA
Found at i:32288218 original size:53 final size:53
Alignment explanation
Indices: 32288161--32288266 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
32288151 TTTAGGATTC
*
32288161 CTTGAGCCA-AAATAAAAACA-TTT-GAGTTTCAAAAAATAAATAATAATGTTTTA
1 CTTGAG-CATAAA-AAAAACATTTTAGAGTTT-AAAAAATAAATAATAATATTTTA
* *
32288214 CTTGAGTATAAAGAAAACATTTTAGAGTTTAAAAAATAAATAATAATATTTTA
1 CTTGAGCATAAAAAAAACATTTTAGAGTTTAAAAAATAAATAATAATATTTTA
32288267 TTACAAAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
52 7 0.15
53 34 0.72
54 6 0.13
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (53 bp):
CTTGAGCATAAAAAAAACATTTTAGAGTTTAAAAAATAAATAATAATATTTTA
Found at i:32288300 original size:26 final size:27
Alignment explanation
Indices: 32288243--32288301 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
32288233 TTTTAGAGTT
** *
32288243 TAAAAAATAAATAATAATATTTTATTA
1 TAAAAAATAAATAATAATATTAAATAA
* *
32288270 CAAAACATAAA-AATAATATTAAATAA
1 TAAAAAATAAATAATAATATTAAATAA
32288296 TAAAAA
1 TAAAAA
32288302 GAGAAGTTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAAAAATAAATAATAATATTAAATAA
Found at i:32288758 original size:10 final size:10
Alignment explanation
Indices: 32288743--32288805 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
32288733 TTCAAAAATA
32288743 TATAATTTTT
1 TATAATTTTT
32288753 TATAATTTTT
1 TATAATTTTT
** *
32288763 CGTAA-TTTC
1 TATAATTTTT
32288772 TAT-ATATTTT
1 TATAAT-TTTT
32288782 TAT-ATTTTT
1 TATAATTTTT
*
32288791 TATGA-TTTT
1 TATAATTTTT
32288800 TATAAT
1 TATAAT
32288806 ATCTATCATT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 1 0.02
9 19 0.45
10 22 0.52
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (10 bp):
TATAATTTTT
Found at i:32288807 original size:29 final size:30
Alignment explanation
Indices: 32288743--32288807 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
32288733 TTCAAAAATA
*
32288743 TATAAT-TTTTTATAATTTTTCGTAATTTC
1 TATAATATTTTTATAATTTTTCATAATTTC
* * *
32288772 TAT-ATATTTTTAT-ATTTTTTATGATTTT
1 TATAATATTTTTATAATTTTTCATAATTTC
32288800 TATAATAT
1 TATAATAT
32288808 CTATCATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (30 bp):
TATAATATTTTTATAATTTTTCATAATTTC
Found at i:32288824 original size:37 final size:38
Alignment explanation
Indices: 32288747--32288827 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 38
32288737 AAAATATATA
* * **
32288747 ATTTTTTATAATTTTTCGTAATTTCTATATATTTTTAT
1 ATTTTTTATAATTTTTCATAATATCTATATATTTCAAT
*
32288785 ATTTTTTATGATTTTT-ATAATATCTATCAT-TTTCAAT
1 ATTTTTTATAATTTTTCATAATATCTAT-ATATTTCAAT
32288822 ATTTTT
1 ATTTTT
32288828 ATATCGTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 20 0.54
38 17 0.46
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (38 bp):
ATTTTTTATAATTTTTCATAATATCTATATATTTCAAT
Found at i:32291669 original size:167 final size:167
Alignment explanation
Indices: 32291410--32291753 Score: 688
Period size: 167 Copynumber: 2.1 Consensus size: 167
32291400 ACTTTCTTTT
32291410 TATAAAATTATGCATGCAAATATGTTACACAATTAATTATGCCTAAATTTTGAGTATTATATGGT
1 TATAAAATTATGCATGCAAATATGTTACACAATTAATTATGCCTAAATTTTGAGTATTATATGGT
32291475 TTATCCATTTATTTAAGTTGATGAATAAATAAATAATTTTTTAATTAAATACTAAAATTATAGTT
66 TTATCCATTTATTTAAGTTGATGAATAAATAAATAATTTTTTAATTAAATACTAAAATTATAGTT
32291540 AAATAGTTTATGATTTCAAGTTTCAGTACATTTCTAA
131 AAATAGTTTATGATTTCAAGTTTCAGTACATTTCTAA
32291577 TATAAAATTATGCATGCAAATATGTTACACAATTAATTATGCCTAAATTTTGAGTATTATATGGT
1 TATAAAATTATGCATGCAAATATGTTACACAATTAATTATGCCTAAATTTTGAGTATTATATGGT
32291642 TTATCCATTTATTTAAGTTGATGAATAAATAAATAATTTTTTAATTAAATACTAAAATTATAGTT
66 TTATCCATTTATTTAAGTTGATGAATAAATAAATAATTTTTTAATTAAATACTAAAATTATAGTT
32291707 AAATAGTTTATGATTTCAAGTTTCAGTACATTTCTAA
131 AAATAGTTTATGATTTCAAGTTTCAGTACATTTCTAA
32291744 TATAAAATTA
1 TATAAAATTA
32291754 AAATAATTTA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 177 1.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (167 bp):
TATAAAATTATGCATGCAAATATGTTACACAATTAATTATGCCTAAATTTTGAGTATTATATGGT
TTATCCATTTATTTAAGTTGATGAATAAATAAATAATTTTTTAATTAAATACTAAAATTATAGTT
AAATAGTTTATGATTTCAAGTTTCAGTACATTTCTAA
Found at i:32291978 original size:18 final size:18
Alignment explanation
Indices: 32291940--32291978 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32291930 AATGCTTTTC
* **
32291940 AAAAATGTTTTTGAGCTA
1 AAAAATGCTTTTGAGAAA
32291958 AAAAATGCTTTTGAGAAA
1 AAAAATGCTTTTGAGAAA
32291976 AAA
1 AAA
32291979 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (18 bp):
AAAAATGCTTTTGAGAAA
Found at i:32292108 original size:18 final size:18
Alignment explanation
Indices: 32292085--32292123 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
32292075 TTAGTAATGC
32292085 TTTTATCTCAAAAGTATT
1 TTTTATCTCAAAAGTATT
* *
32292103 TTTTATTTCAAAAGTGTT
1 TTTTATCTCAAAAGTATT
32292121 TTT
1 TTT
32292124 GAGAAGCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTTATCTCAAAAGTATT
Found at i:32303943 original size:100 final size:100
Alignment explanation
Indices: 32303762--32303958 Score: 279
Period size: 100 Copynumber: 2.0 Consensus size: 100
32303752 TCTTCTGGAG
* * * *
32303762 TCATCTTATTCCTCGGGTGCCAAGCTTTATCTGCTAAAAACCGTTTGCTTTATGTTTGTTTGAGA
1 TCATCTTATTCCTCGGGGGCCAAGCTTTATCTGCTAAAAACCATTTGCTTAATGTCTGTTTGAGA
* * * * *
32303827 ATATATTTCTTAAAATTATTCGATGCCATGTTCCA
66 ATACATTTATTAAAATTACTCAATACCATGTTCCA
* *
32303862 TCATCTTATTCCTTGGGGGCCAAGCTTTATCTGCTAAAAAACCATTTGCTTAATGTCTGTTTGTG
1 TCATCTTATTCCTCGGGGGCCAAGCTTTATCTGCT-AAAAACCATTTGCTTAATGTCTGTTTGAG
32303927 AATACATTTATT-AAATTACTCAATACCATGTT
65 AATACATTTATTAAAATTACTCAATACCATGTT
32303959 TCATTACTGC
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 50 0.59
101 35 0.41
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (100 bp):
TCATCTTATTCCTCGGGGGCCAAGCTTTATCTGCTAAAAACCATTTGCTTAATGTCTGTTTGAGA
ATACATTTATTAAAATTACTCAATACCATGTTCCA
Found at i:32308396 original size:9 final size:9
Alignment explanation
Indices: 32308382--32308409 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
32308372 ATAATATGGT
32308382 AATTAATTA
1 AATTAATTA
32308391 AATTAATTA
1 AATTAATTA
32308400 AATTAATTA
1 AATTAATTA
32308409 A
1 A
32308410 CACTTAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTAATTA
Found at i:32311294 original size:4 final size:4
Alignment explanation
Indices: 32311285--32311312 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
32311275 CGTAAAAGAG
32311285 GTTT GTTT GTTT GTTT GTTT GTTT GTTT
1 GTTT GTTT GTTT GTTT GTTT GTTT GTTT
32311313 TTTAAATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.25, T:0.75
Consensus pattern (4 bp):
GTTT
Found at i:32320335 original size:29 final size:29
Alignment explanation
Indices: 32320302--32320374 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
32320292 ATTAATAACG
32320302 ATAAAATTATATTTTGACCT-CTCAAAATA
1 ATAAAATTATATTTT-ACCTACTCAAAATA
* * * *
32320331 ATAAAAATT-TAATTTATCTATTTAAAATA
1 AT-AAAATTATATTTTACCTACTCAAAATA
32320360 ATAAAATTATATTTT
1 ATAAAATTATATTTT
32320375 TACTATCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
28 9 0.25
29 21 0.58
30 6 0.17
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (29 bp):
ATAAAATTATATTTTACCTACTCAAAATA
Found at i:32321955 original size:17 final size:17
Alignment explanation
Indices: 32321929--32321963 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32321919 TTGAAATTTT
*
32321929 AAATTTTAATCTTTTAA
1 AAATTATAATCTTTTAA
*
32321946 AAATTATAATGTTTTAA
1 AAATTATAATCTTTTAA
32321963 A
1 A
32321964 TTGATCTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
AAATTATAATCTTTTAA
Found at i:32325942 original size:28 final size:27
Alignment explanation
Indices: 32325907--32325966 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
32325897 AATTTTTTAA
*
32325907 ATTTT-AAAAATAAAAAGTATAAGAAAT
1 ATTTTAAAAAATAAAAA-TATAAAAAAT
32325934 CATTTTAAAAAATAAAAATATAAAAAAT
1 -ATTTTAAAAAATAAAAATATAAAAAAT
32325962 ATTTT
1 ATTTT
32325967 CTTAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 5 0.17
28 14 0.47
29 11 0.37
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (27 bp):
ATTTTAAAAAATAAAAATATAAAAAAT
Found at i:32326278 original size:27 final size:27
Alignment explanation
Indices: 32326247--32326298 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
32326237 AGTAATTATA
32326247 CAAAACATAA-CTCAATTATACAAAAAG
1 CAAAACATAACCT-AATTATACAAAAAG
*
32326274 CAAAACATTACCTAATTATACAAAA
1 CAAAACATAACCTAATTATACAAAA
32326299 TATAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (27 bp):
CAAAACATAACCTAATTATACAAAAAG
Found at i:32328471 original size:29 final size:27
Alignment explanation
Indices: 32328439--32328546 Score: 89
Period size: 28 Copynumber: 3.9 Consensus size: 27
32328429 AATATTAATA
*
32328439 AAATATATATTTTAGAAAATCTAAAAAGT
1 AAATA-ATATTTTAGAAAAT-TAAAAAAT
*
32328468 AAATAAAATTTTCA-AAAATATAAAAAAT
1 AAATAATATTTT-AGAAAAT-TAAAAAAT
*
32328496 AATTAAATATTTTAGAAAATT-AAAAAT
1 AAAT-AATATTTTAGAAAATTAAAAAAT
* *
32328523 ATATAA-ATTCTTA-AAAATTCAAAA
1 AAATAATATT-TTAGAAAATTAAAAA
32328547 TTATAAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.13
26 9 0.13
27 8 0.12
28 23 0.34
29 18 0.27
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (27 bp):
AAATAATATTTTAGAAAATTAAAAAAT
Found at i:32328479 original size:28 final size:27
Alignment explanation
Indices: 32328439--32328547 Score: 100
Period size: 29 Copynumber: 4.0 Consensus size: 27
32328429 AATATTAATA
*
32328439 AAATATATATTTTAGAAAATCTAAAAAGT
1 AAATAAATATTTTAGAAAAT-TAAAAA-T
32328468 AAATAAA-ATTTTCA-AAAATATAAAAAAT
1 AAATAAATATTTT-AGAAAAT-T-AAAAAT
*
32328496 AATTAAATATTTTAGAAAATTAAAAAT
1 AAATAAATATTTTAGAAAATTAAAAAT
* * *
32328523 ATATAAAT-TCTTA-AAAATTCAAAAT
1 AAATAAATATTTTAGAAAATTAAAAAT
32328548 TATAAAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
25 11 0.16
26 4 0.06
27 12 0.17
28 20 0.29
29 22 0.32
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (27 bp):
AAATAAATATTTTAGAAAATTAAAAAT
Found at i:32329304 original size:29 final size:29
Alignment explanation
Indices: 32329237--32329305 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
32329227 TCTTTTATTT
*
32329237 AAGTGTTTCTAGTTGAACATTGAAAATTA
1 AAGTGATTCTAGTTGAACATTGAAAATTA
* * * * *
32329266 GAGAGCTTCTAGTTG-ATATTTAAAAGTTA
1 AAGTGATTCTAGTTGAACATTGAAAA-TTA
32329295 AAGTGATTCTA
1 AAGTGATTCTA
32329306 TTTTAACGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (29 bp):
AAGTGATTCTAGTTGAACATTGAAAATTA
Found at i:32342574 original size:65 final size:65
Alignment explanation
Indices: 32342490--32342628 Score: 219
Period size: 66 Copynumber: 2.2 Consensus size: 65
32342480 TAAATCGTTC
* * *
32342490 AAATA-TTAATTTTCAATTGATTT-TTTTTTTTTCAACAAGTTATCAAACCATGCATAAATTAAT
1 AAATACTTAATTTTCAATTGATTTACTTCTTTTTCAACAAGTTATAAAACCATGCATAAATTAAT
*
32342553 AAATACTTACATTTTCAATTGATTTACTTCTTTTTCAGCAAGTTATAAAACCATGCATAAATTAA
1 AAATACTTA-ATTTTCAATTGATTTACTTCTTTTTCAACAAGTTATAAAACCATGCATAAATTAA
32342618 T
65 T
32342619 AAATACTTAA
1 AAATACTTAA
32342629 ATATTTTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
63 5 0.07
64 3 0.04
65 16 0.23
66 45 0.65
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (65 bp):
AAATACTTAATTTTCAATTGATTTACTTCTTTTTCAACAAGTTATAAAACCATGCATAAATTAAT
Found at i:32343805 original size:3 final size:3
Alignment explanation
Indices: 32343799--32343827 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32343789 GGAAAGTGGT
32343799 GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GG
32343828 TCAACGTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:32345761 original size:2 final size:2
Alignment explanation
Indices: 32345754--32345787 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32345744 GGTTCTTTGC
32345754 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32345788 GCCTGTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32355144 original size:13 final size:13
Alignment explanation
Indices: 32355126--32355152 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32355116 TATTTACGAC
32355126 TATAGATTTATAA
1 TATAGATTTATAA
32355139 TATAGATTTATAA
1 TATAGATTTATAA
32355152 T
1 T
32355153 TGACCAAAGG
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATAGATTTATAA
Found at i:32359693 original size:2 final size:2
Alignment explanation
Indices: 32359688--32359729 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32359678 GAAAAAATCA
32359688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32359730 TTATCTAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32371941 original size:44 final size:44
Alignment explanation
Indices: 32371878--32371965 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
32371868 CTGCCTGCAT
32371878 ATGGGCTTCGTGAGGTTCATGCATAAACTGGCTTACCAAACTAA
1 ATGGGCTTCGTGAGGTTCATGCATAAACTGGCTTACCAAACTAA
32371922 ATGGGCTTCGTGAGGTTCATGCATAAACTGGCTTACCAAACTAA
1 ATGGGCTTCGTGAGGTTCATGCATAAACTGGCTTACCAAACTAA
32371966 CTGCATAGGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
ATGGGCTTCGTGAGGTTCATGCATAAACTGGCTTACCAAACTAA
Found at i:32374260 original size:199 final size:200
Alignment explanation
Indices: 32373919--32374314 Score: 758
Period size: 199 Copynumber: 2.0 Consensus size: 200
32373909 TTCTATTATT
*
32373919 ACGTAAAGGATAACTGTTTCTTGTATGCTTAGCAAAGTCACATGCAACACAAACTAAAGAATCCA
1 ACGTAAAGGATAACTGTTTCTTGAATGCTTAGCAAAGTCACATGCAACACAAACTAAAGAATCCA
32373984 ACTGAGTTCTTGAAAACAAAGTAGGAAACATCTTGGCAAGAACAGTAAATGATGGATGTCCTAAC
66 ACTGAGTTCTTGAAAACAAAGTAGGAAACATCTTGGCAAGAACAGTAAATGATGGATGTCCTAAC
32374049 CTCCTATGCCATTGAATTATCTCTTGGTTGACATCTTTATTCTCTCCAAATAAGGCTTGAGACAT
131 CTCCTATGCCATTGAATTATCTCTTGGTTGACATCTTTATTCTCTCCAAATAAGGCTTGAGACAT
32374114 ACCAA
196 ACCAA
32374119 ACGTAAAGGATAACTGTTTCTTGAATGCTTAGCAAAGTCACATGCAACAC-AACTAAAGAATCCA
1 ACGTAAAGGATAACTGTTTCTTGAATGCTTAGCAAAGTCACATGCAACACAAACTAAAGAATCCA
32374183 ACTGAGTTCTTGAAAACAAAGTAGGAAACATCTTGGCAAGAACAGTAAATGATGGATGTCCTAAC
66 ACTGAGTTCTTGAAAACAAAGTAGGAAACATCTTGGCAAGAACAGTAAATGATGGATGTCCTAAC
* *
32374248 CTCCTCTGCCATTGAATTATGTCTTGGTTGACATCTTTATTCTCTCCAAATAAGGCTTGAGACAT
131 CTCCTATGCCATTGAATTATCTCTTGGTTGACATCTTTATTCTCTCCAAATAAGGCTTGAGACAT
32374313 AC
196 AC
32374315 TGGAAAATTG
Statistics
Matches: 193, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
199 144 0.75
200 49 0.25
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (200 bp):
ACGTAAAGGATAACTGTTTCTTGAATGCTTAGCAAAGTCACATGCAACACAAACTAAAGAATCCA
ACTGAGTTCTTGAAAACAAAGTAGGAAACATCTTGGCAAGAACAGTAAATGATGGATGTCCTAAC
CTCCTATGCCATTGAATTATCTCTTGGTTGACATCTTTATTCTCTCCAAATAAGGCTTGAGACAT
ACCAA
Found at i:32401289 original size:60 final size:59
Alignment explanation
Indices: 32401210--32401322 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
32401200 TTTTTTTTCT
* * *
32401210 AATTAATCCTTGAATTAGGCAATTGTTTTCACATTAGGGCTTCAACTTTTTTTTTGTCCA
1 AATTAATCCTTAAAGTAGGCAATTGTTCTCACATTAGGGCTTCAA-TTTTTTTTTGTCCA
* * * *
32401270 AATTAGTCCTTAAAGTAGGCAATTGTTCTCATATTAGGGTTTGAATTTTTTTT
1 AATTAATCCTTAAAGTAGGCAATTGTTCTCACATTAGGGCTTCAATTTTTTTT
32401323 CAAGCTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 8 0.17
60 38 0.83
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (59 bp):
AATTAATCCTTAAAGTAGGCAATTGTTCTCACATTAGGGCTTCAATTTTTTTTTGTCCA
Found at i:32401609 original size:17 final size:15
Alignment explanation
Indices: 32401589--32401632 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
32401579 TTTATTTTGG
32401589 ATTTAAATTTGTATACA
1 ATTTAAATTT-TATA-A
32401606 ATTTAAATCTATTATAA
1 ATTTAAAT-T-TTATAA
32401623 ATTTAAATTT
1 ATTTAAATTT
32401633 AAGATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 17 0.68
18 5 0.20
19 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTAAATTTTATAA
Found at i:32402421 original size:3 final size:3
Alignment explanation
Indices: 32402415--32402460 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
32402405 AATTTCTTTT
* * *
32402415 TAA TAA TAA TAA TAA TAA TTAA TAA CAC TAA TAA TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
32402461 ATATAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32403550 original size:28 final size:29
Alignment explanation
Indices: 32403496--32403550 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
32403486 GCTTACAGGT
**
32403496 CCCTAAACTATTCAAAAATTATGTTTTGA
1 CCCTAAACTATTCAAAAATTACATTTTGA
* *
32403525 CCCTAAACT-TTCCAAAATTCCATTTT
1 CCCTAAACTATTCAAAAATTACATTTT
32403551 TAACCTCGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 13 0.59
29 9 0.41
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (29 bp):
CCCTAAACTATTCAAAAATTACATTTTGA
Found at i:32403613 original size:30 final size:28
Alignment explanation
Indices: 32403533--32403936 Score: 163
Period size: 29 Copynumber: 13.9 Consensus size: 28
32403523 GACCCTAAAC
* * *
32403533 TTTCCAAAATTCCATTTTTAACCTCG-A
1 TTTCCAAAATCCCATTTTTACCCCCGAA
* *
32403560 TTTCACTAAAAATTACCA-TTTAACCCCCGAA
1 TTTC-C--AAAA-TCCCATTTTTACCCCCGAA
*
32403591 CTTTCCAAAATCCCATTTTTAACCCCG-A
1 -TTTCCAAAATCCCATTTTTACCCCCGAA
* *
32403619 TTTCACCAAAAATTACCA-CTTTACCCCCGAA
1 TTT--CC-AAAA-TCCCATTTTTACCCCCGAA
*
32403650 CTTTCCAAAATCCCATTTTTTAACCCCG-A
1 -TTTCCAAAATCCCA-TTTTTACCCCCGAA
*
32403679 TTTCACCAAAATTACCATTTTTACCCCCGAA
1 TTT--CCAAAA-TCCCATTTTTACCCCCGAA
* *
32403710 CTTTCCAGAATCCCATGTTTGA-CCCCG-A
1 -TTTCCAAAATCCCAT-TTTTACCCCCGAA
*
32403738 TTTCACCAAAATCACCA-TTTTACCCCCAAA
1 TTT--CCAAAATC-CCATTTTTACCCCCGAA
32403768 TCTTCCAAAATCCCATTTTTGA-CCCCG-A
1 T-TTCCAAAATCCCATTTTT-ACCCCCGAA
* * *
32403796 TTTCACCAAAATTACCA-TTTTACTCTCGAA
1 TTT--CCAAAA-TCCCATTTTTACCCCCGAA
* * *
32403826 CTCTCCAAAA-CCTCA-TTTTAACCTC-AA
1 -TTTCCAAAATCC-CATTTTTACCCCCGAA
* * *
32403853 TTTACTAAATATTACCA-TTTTACCCCAGAA
1 TTT-CCAAA-A-TCCCATTTTTACCCCCGAA
* * * * *
32403883 CCTTCTAAAGTCCCATTTTTAACCCCAAA
1 -TTTCCAAAATCCCATTTTTACCCCCGAA
**
32403912 TTTCCTAAAATTACATTTTTACCCC
1 TTTCC-AAAATCCCATTTTTACCCC
32403937 TCGAGAGTCA
Statistics
Matches: 286, Mismatches: 47, Indels: 86
0.68 0.11 0.21
Matches are distributed among these distances:
26 2 0.01
27 19 0.07
28 42 0.15
29 110 0.38
30 81 0.28
31 22 0.08
32 10 0.03
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.33
Consensus pattern (28 bp):
TTTCCAAAATCCCATTTTTACCCCCGAA
Found at i:32403789 original size:58 final size:58
Alignment explanation
Indices: 32403530--32403936 Score: 484
Period size: 59 Copynumber: 7.0 Consensus size: 58
32403520 TTTGACCCTA
* * * *
32403530 AACTTTCCAAAATTCCATTTTTAACCTCGATTTCACTAAAAATTACCATTTAACCCCCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC-CAAAATTACCATTTTACCCCCG
*
32403589 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCACTTTACCCCCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCG
32403648 AACTTTCCAAAATCCCATTTTTTAACCCCGATTTCACCAAAATTACCATTTTTACCCCCG
1 AACTTTCCAAAATCCCA-TTTTTAACCCCGATTTCACCAAAATTACCA-TTTTACCCCCG
* * * *
32403708 AACTTTCCAGAATCCCATGTTTGACCCCGATTTCACCAAAATCACCATTTTACCCCC-
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * * *
32403765 AAATCTTCCAAAATCCCATTTTTGACCCCGATTTCACCAAAATTACCATTTTACTCTCG
1 AACT-TTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
* * * * *
32403824 AACTCTCCAAAA-CCTCA-TTTTAACCTCAATTT-ACTAAATATTACCATTTTACCCCAG
1 AACTTTCCAAAATCC-CATTTTTAACCCCGATTTCACCAAA-ATTACCATTTTACCCCCG
* * * * *
32403881 AACCTTCTAAAGTCCCATTTTTAACCCCAAATTTC-CTAAAATTA-CATTTTTACCCC
1 AACTTTCCAAAATCCCATTTTTAACCCC-GATTTCACCAAAATTACCA-TTTTACCCC
32403937 TCGAGAGTCA
Statistics
Matches: 306, Mismatches: 30, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
56 5 0.02
57 44 0.14
58 91 0.30
59 120 0.39
60 46 0.15
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (58 bp):
AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG
Found at i:32408703 original size:29 final size:29
Alignment explanation
Indices: 32408670--32408725 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
32408660 TACGTTTAAG
32408670 TGAAAATCAACAATCTCTAAAGATATAAA
1 TGAAAATCAACAATCTCTAAAGATATAAA
* * *
32408699 TGAAACTCAACAATCTTTAAATATATA
1 TGAAAATCAACAATCTCTAAAGATATA
32408726 TTAACATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (29 bp):
TGAAAATCAACAATCTCTAAAGATATAAA
Found at i:32412036 original size:5 final size:6
Alignment explanation
Indices: 32412021--32412046 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32412011 TAAAATCCTA
32412021 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
32412047 GGAGATCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:32423942 original size:18 final size:19
Alignment explanation
Indices: 32423908--32423943 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32423898 CTTAATGTAT
32423908 ATTATTAACTCTAAGTTTA
1 ATTATTAACTCTAAGTTTA
*
32423927 ATTATTAAGT-TAAGTTT
1 ATTATTAACTCTAAGTTT
32423944 GAGCTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (19 bp):
ATTATTAACTCTAAGTTTA
Found at i:32436127 original size:18 final size:19
Alignment explanation
Indices: 32436086--32436127 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
32436076 CGATTTAATT
* *
32436086 TAATATTTTTAATTATTTA
1 TAATATATTTAATAATTTA
*
32436105 AAATATATTT-ATAATTTA
1 TAATATATTTAATAATTTA
32436123 TAATA
1 TAATA
32436128 CATAAAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATTTAATAATTTA
Found at i:32447065 original size:3 final size:3
Alignment explanation
Indices: 32447059--32447093 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32447049 CTCCTCCTCC
32447059 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
32447094 CTCCTCCTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:32452545 original size:18 final size:18
Alignment explanation
Indices: 32452524--32452563 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32452514 GGACGAAGAA
32452524 GAAGCCGACGACGATGAT
1 GAAGCCGACGACGATGAT
* * *
32452542 GAAGCGGAGGAGGATGAT
1 GAAGCCGACGACGATGAT
32452560 GAAG
1 GAAG
32452564 ATGAATGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.42, T:0.10
Consensus pattern (18 bp):
GAAGCCGACGACGATGAT
Found at i:32453134 original size:61 final size:59
Alignment explanation
Indices: 32453024--32453139 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 59
32453014 ATTATTTTAA
* * *
32453024 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAAATTAATTTTAAATTT
1 TATTAAATTAATAAAATATTTATCAAGATAAATATTACATTAAAATTAATATTAAATTT
* *
32453083 TATTAAATTAATAAAATATTATAT-ATACGATAAATATTTCATTAAATTTAATATTAA
1 TATTAAATTAATAAAATATT-TATCA-A-GATAAATATTACATTAAAATTAATATTAA
32453140 CATAATCACA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 20 0.41
60 4 0.08
61 25 0.51
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (59 bp):
TATTAAATTAATAAAATATTTATCAAGATAAATATTACATTAAAATTAATATTAAATTT
Found at i:32454481 original size:16 final size:17
Alignment explanation
Indices: 32454445--32454482 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
32454435 GTAAAAATAA
32454445 AATTTTATTATTTTAAT
1 AATTTTATTATTTTAAT
*
32454462 -ATTTTA-TATTTTTAT
1 AATTTTATTATTTTAAT
32454477 AATTTT
1 AATTTT
32454483 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTATTATTTTAAT
Found at i:32456504 original size:17 final size:16
Alignment explanation
Indices: 32456471--32456513 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
32456461 AATTTTACAC
32456471 TTTAATTTTGTCATTT
1 TTTAATTTTGTCATTT
32456487 TTTAATATTTGT-ATTT
1 TTTAAT-TTTGTCATTT
32456503 TTTAGATTTTG
1 TTTA-ATTTTG
32456514 AAATTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (16 bp):
TTTAATTTTGTCATTT
Found at i:32456973 original size:2 final size:2
Alignment explanation
Indices: 32456966--32456992 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32456956 TAAACGCCTT
32456966 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32456993 CGGTGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32458054 original size:20 final size:23
Alignment explanation
Indices: 32458031--32458080 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
32458021 GATATATGAA
32458031 GTAAAAATTT-TA-AA-TATTTT
1 GTAAAAATTTATATAATTATTTT
*
32458051 GTAAATAATTTATATAATTTTTTT
1 GTAAA-AATTTATATAATTATTTT
32458075 GTAAAA
1 GTAAAA
32458081 TTAATGATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 5 0.20
22 2 0.08
23 3 0.12
24 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
GTAAAAATTTATATAATTATTTT
Found at i:32458170 original size:33 final size:32
Alignment explanation
Indices: 32458094--32458197 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 32
32458084 ATGATACATA
*
32458094 AAATATTTTAAA-AACTTGAATATAATAATAAAT
1 AAATA-TTTAAATAA-TTTAATATAATAATAAAT
*
32458127 -TATATTTAAATAATTTAATATAATAATAAAT
1 AAATATTTAAATAATTTAATATAATAATAAAT
32458158 GAAATATTTAAATAATTATAATTATACATAA-AATAT
1 -AAATATTTAAATAATT-TAA-TATA-ATAATAA-AT
32458194 AAAT
1 AAAT
32458198 CAATCTAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
31 23 0.38
32 5 0.08
33 14 0.23
34 3 0.05
35 10 0.16
36 6 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
AAATATTTAAATAATTTAATATAATAATAAAT
Found at i:32458241 original size:15 final size:15
Alignment explanation
Indices: 32458221--32458250 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32458211 CATATACTTT
*
32458221 TTAAATAGTTAATAA
1 TTAAATAATTAATAA
32458236 TTAAATAATTAATAA
1 TTAAATAATTAATAA
32458251 AATAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
TTAAATAATTAATAA
Found at i:32459144 original size:113 final size:113
Alignment explanation
Indices: 32459003--32459260 Score: 444
Period size: 113 Copynumber: 2.3 Consensus size: 113
32458993 ATAAAAAATA
* *
32459003 TATAAAATTATTAATTATTAAAACAAAATAAAATAAATATTTTTAAAAATAAAAATAAAAATAAT
1 TATAAAATTATTAAATATTAAAATAAAATAAAATAAATATTTTTAAAAATAAAAATAAAAATAAT
* * *
32459068 ATGGGCGGGCCTTAAATGAGCTTGGATTGGTCTTTTGTAAATACAATG
66 ATGGGCGGGCCTAAAATGAGCTTGAATTGATCTTTTGTAAATACAATG
32459116 TATAAAATTATTAAATATTAAAATAAAATAAAATAAATATTTTTAAAAATAAAAATAAAAATAAT
1 TATAAAATTATTAAATATTAAAATAAAATAAAATAAATATTTTTAAAAATAAAAATAAAAATAAT
* * *
32459181 ATGGGTGGGCCTAAAATGAGTTTGAATTGATCTTTTGTAAATATAATG
66 ATGGGCGGGCCTAAAATGAGCTTGAATTGATCTTTTGTAAATACAATG
32459229 TATAAAATTATTAAATATTAAAATAAAATAAA
1 TATAAAATTATTAAATATTAAAATAAAATAAA
32459261 TATTTTAAAA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 137 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (113 bp):
TATAAAATTATTAAATATTAAAATAAAATAAAATAAATATTTTTAAAAATAAAAATAAAAATAAT
ATGGGCGGGCCTAAAATGAGCTTGAATTGATCTTTTGTAAATACAATG
Found at i:32459696 original size:18 final size:17
Alignment explanation
Indices: 32459651--32459698 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
32459641 TATGACGGGC
32459651 ATAAATTAA-AAAAATT
1 ATAAATTAATAAAAATT
**
32459667 A-AAATTTTTAAAAATAT
1 ATAAATTAATAAAAAT-T
32459684 ATAAATTAATAAAAA
1 ATAAATTAATAAAAA
32459699 AAATTGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.20
16 7 0.28
17 2 0.08
18 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATTAATAAAAATT
Found at i:32463655 original size:16 final size:16
Alignment explanation
Indices: 32463613--32463657 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
32463603 ATCATGTTTA
32463613 CACTTTCATTTT-GGT
1 CACTTTCATTTTAGGT
32463628 CAC--TCAACTTTTAGGT
1 CACTTTC-A-TTTTAGGT
32463644 CACTTTCATTTTAG
1 CACTTTCATTTTAG
32463658 TCATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.08
14 1 0.04
15 7 0.28
16 12 0.48
17 1 0.04
18 2 0.08
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (16 bp):
CACTTTCATTTTAGGT
Found at i:32468167 original size:29 final size:32
Alignment explanation
Indices: 32468126--32468186 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 32
32468116 TAATGTGTAA
* * *
32468126 TTATATACATGAACTTT-GATTTTATGCAATT
1 TTATATACATGAAATTTCGATTTGATCCAATT
32468157 TTATAT-C-TGAAATTTCGATTTGATCCAATT
1 TTATATACATGAAATTTCGATTTGATCCAATT
32468187 ATTGTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 7 0.27
30 13 0.50
31 6 0.23
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (32 bp):
TTATATACATGAAATTTCGATTTGATCCAATT
Found at i:32468404 original size:29 final size:31
Alignment explanation
Indices: 32468318--32468404 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 31
32468308 ATGATTAAAT
* * *
32468318 CAAAATTAAAGTTTCAAGTATACATTTGAAC
1 CAAAATTAAAGATTCATGTATACAATTGAAC
* * * * *
32468349 CAAAATTAGAGATTTATATATATAATTGTAC
1 CAAAATTAAAGATTCATGTATACAATTGAAC
*
32468380 C-AAATTACAG-TTCATGTATACAATT
1 CAAAATTAAAGATTCATGTATACAATT
32468405 ACATATTAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 12 0.27
30 8 0.18
31 24 0.55
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (31 bp):
CAAAATTAAAGATTCATGTATACAATTGAAC
Found at i:32477370 original size:54 final size:54
Alignment explanation
Indices: 32477287--32477392 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
32477277 ACAAATCTCA
* * *
32477287 ACTTTAAAATTGACCTGAACGACAACGTTTCGTAAGTTTGACTAACTGACTTCC
1 ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAACTGACTTCC
*** *
32477341 ACTTTAAAATTAACCTAAACGATGGCGTTTCGTAACTTTGACTAATTGACTT
1 ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAACTGACTT
32477393 GGAATAATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (54 bp):
ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAACTGACTTCC
Found at i:32477696 original size:16 final size:17
Alignment explanation
Indices: 32477665--32477698 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32477655 TCTCCACCCG
*
32477665 CCTCAACTCTCCTCCTC
1 CCTCAAATCTCCTCCTC
32477682 CCTCAAATC-CCTCCTC
1 CCTCAAATCTCCTCCTC
32477698 C
1 C
32477699 TTTCCCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.59, G:0.00, T:0.26
Consensus pattern (17 bp):
CCTCAAATCTCCTCCTC
Found at i:32483006 original size:19 final size:19
Alignment explanation
Indices: 32482976--32483027 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
32482966 ATAATCAATT
32482976 ATAAAAA-A-TATACAAA-C
1 ATAAAAATATTATA-AAATC
*
32482993 ATATAAATATTATAAAATC
1 ATAAAAATATTATAAAATC
*
32483012 ATAAAAATATAATAAA
1 ATAAAAATATTATAAA
32483028 TTTAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 19 0.66
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAAAAATATTATAAAATC
Found at i:32491354 original size:10 final size:10
Alignment explanation
Indices: 32491339--32491365 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
32491329 GTGTGAATGT
32491339 GGAAGAGTTA
1 GGAAGAGTTA
32491349 GGAAGAGTTA
1 GGAAGAGTTA
32491359 GGAAGAG
1 GGAAGAG
32491366 ATATATTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (10 bp):
GGAAGAGTTA
Found at i:32491517 original size:23 final size:25
Alignment explanation
Indices: 32491490--32491535 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32491480 CCAATTAGGG
32491490 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
32491513 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
32491536 TGGATCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:32492900 original size:34 final size:34
Alignment explanation
Indices: 32492846--32492915 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
32492836 ATTTTGATTT
* * * *
32492846 AAAAGAAATGTTTATTGCGAGGAAAGGTATGTCA
1 AAAAAAAATATTTATCGCGAGGAAAAGTATGTCA
32492880 AAAAAAAATATTTATCGCGAGGAAAAGTATGTCA
1 AAAAAAAATATTTATCGCGAGGAAAAGTATGTCA
32492914 AA
1 AA
32492916 TTTATTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.24
Consensus pattern (34 bp):
AAAAAAAATATTTATCGCGAGGAAAAGTATGTCA
Found at i:32508596 original size:24 final size:24
Alignment explanation
Indices: 32508566--32508614 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
32508556 TTTTTAAATA
32508566 TTTTAAGTTTCAACTTTCTTTCTT
1 TTTTAAGTTTCAACTTTCTTTCTT
*
32508590 TTTTAAGTTTCAACTTTTTTTCTT
1 TTTTAAGTTTCAACTTTCTTTCTT
32508614 T
1 T
32508615 CTTTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTAAGTTTCAACTTTCTTTCTT
Found at i:32511427 original size:20 final size:20
Alignment explanation
Indices: 32511402--32511440 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32511392 TACTATTAAA
*
32511402 ATAATAGTGTTAACAATTGG
1 ATAATAGTATTAACAATTGG
*
32511422 ATAATAGTATTAATAATTG
1 ATAATAGTATTAACAATTG
32511441 AACCTGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
ATAATAGTATTAACAATTGG
Found at i:32513718 original size:10 final size:10
Alignment explanation
Indices: 32513703--32513782 Score: 60
Period size: 10 Copynumber: 8.0 Consensus size: 10
32513693 AATATGTGAG
32513703 TTATAAAAAA
1 TTATAAAAAA
32513713 TTATAAAAAACA
1 TTAT-AAAAA-A
*
32513725 TT-T-AAAAT
1 TTATAAAAAA
32513733 TTAT-AAAAA
1 TTATAAAAAA
* *
32513742 TTATTAAAAG
1 TTATAAAAAA
*
32513752 TTA-ATTAAAA
1 TTATA-AAAAA
32513762 TTATATAAAAA
1 TTATA-AAAAA
32513773 TTATAAAAAA
1 TTATAAAAAA
32513783 ATAATTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 2 0.04
9 13 0.23
10 22 0.39
11 17 0.30
12 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:32513781 original size:20 final size:20
Alignment explanation
Indices: 32513703--32513781 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
32513693 AATATGTGAG
32513703 TTATA-AAAAATTATAAAAA
1 TTATATAAAAATTATAAAAA
** * *
32513722 ACATTTAAAATTTATAAAAA
1 TTATATAAAAATTATAAAAA
* *
32513742 TTAT-TAAAAGTTAATTAAAA
1 TTATATAAAAATT-ATAAAAA
32513762 TTATATAAAAATTATAAAAA
1 TTATATAAAAATTATAAAAA
32513782 AATAATTTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
19 9 0.19
20 31 0.66
21 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (20 bp):
TTATATAAAAATTATAAAAA
Found at i:32524354 original size:3 final size:3
Alignment explanation
Indices: 32524346--32524376 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32524336 CTTAAACCCC
32524346 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
32524377 CACAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:32533454 original size:27 final size:27
Alignment explanation
Indices: 32533395--32533447 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32533385 CTGAATCTCA
* *
32533395 AGGTTCGAGGTTCAAGATTTATGATTC
1 AGGTTCGAGGTTCAAGATTCAGGATTC
32533422 AGGGTTCGA-GTTCAAGATTCAGGATT
1 A-GGTTCGAGGTTCAAGATTCAGGATT
32533448 TGAGGTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (27 bp):
AGGTTCGAGGTTCAAGATTCAGGATTC
Found at i:32537190 original size:2 final size:2
Alignment explanation
Indices: 32537183--32537229 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
32537173 ATAAAATGAT
32537183 TA TA TA TA TA TA TA TA TA TA 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 TA
32537225 TA TA T
1 TA TA T
32537230 TGGCAATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32546503 original size:43 final size:42
Alignment explanation
Indices: 32546456--32546590 Score: 107
Period size: 43 Copynumber: 3.1 Consensus size: 42
32546446 AATATGCTAG
*
32546456 TGAAAATGCTTCCTACAGGATGCGTTTTCCAGCCACATGTCAA
1 TGAAAATGCTTCCTATAGGA-GCGTTTTCCAGCCACATGTCAA
* * * *
32546499 TGAAAAATGCATCCTGTAGGAAGCATTTT-CATTG-C-CATATCAGA
1 TG-AAAATGCTTCCTATAGG-AGCGTTTTCCA--GCCACATGTCA-A
** *
32546543 TGAAAATG-TTTTTATAGGGAGCGTTTTCCAGCCACATGTCAG
1 TGAAAATGCTTCCTATA-GGAGCGTTTTCCAGCCACATGTCAA
32546585 TGAAAA
1 TGAAAA
32546591 CACGCGTCCT
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
41 1 0.01
42 18 0.25
43 26 0.37
44 24 0.34
45 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
TGAAAATGCTTCCTATAGGAGCGTTTTCCAGCCACATGTCAA
Found at i:32546575 original size:86 final size:87
Alignment explanation
Indices: 32546477--32546638 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 87
32546467 CCTACAGGAT
* * * *
32546477 GCGTTTTCCAGCCACATGTCAATGAAAA-ATGCATCCTGTAGGAAGCATTTTCATTGCCATATCA
1 GCGTTTTCCAGCCACATGTCAATGAAAACACGCATCCTATAAGAAGCATTTTCACTGCCATATCA
32546541 GATGAAAATGTTTTTATAGGGA
66 GATGAAAATGTTTTTATAGGGA
* * * *
32546563 GCGTTTTCCAGCCACATGTCAGTGAAAACACGCGTCCTATAAGAAGCGTTTTCACTGTCATATCA
1 GCGTTTTCCAGCCACATGTCAATGAAAACACGCATCCTATAAGAAGCATTTTCACTGCCATATCA
32546628 GATGAAAATGT
66 GATGAAAATGT
32546639 CTTTGCAGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 27 0.40
87 40 0.60
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (87 bp):
GCGTTTTCCAGCCACATGTCAATGAAAACACGCATCCTATAAGAAGCATTTTCACTGCCATATCA
GATGAAAATGTTTTTATAGGGA
Found at i:32546656 original size:87 final size:86
Alignment explanation
Indices: 32546456--32546657 Score: 237
Period size: 87 Copynumber: 2.3 Consensus size: 86
32546446 AATATGCTAG
* * *
32546456 TGAAAATG-CTTCCTACAG-GATGCGTTTTCCAGCCACATGTCAATGAAAAATGCATCCTGTAGG
1 TGAAAATGTCTT--TACAGAGA-GCGTTTTCCAGCCACATGTCAATGAAAAACGCATCCTATAAG
*
32546519 AAGCATTTTCATTGCCATATCAGA
63 AAGCATTTTCACTGCCATATCAGA
* * * * *
32546543 TGAAAATGTTTTTATAGGGAGCGTTTTCCAGCCACATGTCAGTGAAAACACGCGTCCTATAAGAA
1 TGAAAATGTCTTTACAGAGAGCGTTTTCCAGCCACATGTCAATGAAAA-ACGCATCCTATAAGAA
* *
32546608 GCGTTTTCACTGTCATATCAGA
65 GCATTTTCACTGCCATATCAGA
* *
32546630 TGAAAATGTCTTTGCAGAGAGGGTTTTC
1 TGAAAATGTCTTTACAGAGAGCGTTTTC
32546658 TCTCTAGCCA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
86 31 0.32
87 64 0.66
88 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (86 bp):
TGAAAATGTCTTTACAGAGAGCGTTTTCCAGCCACATGTCAATGAAAAACGCATCCTATAAGAAG
CATTTTCACTGCCATATCAGA
Found at i:32550977 original size:87 final size:87
Alignment explanation
Indices: 32550821--32550988 Score: 246
Period size: 87 Copynumber: 1.9 Consensus size: 87
32550811 TCCCATGATT
* * * * ** **
32550821 CTCCTCCAGCAATTGATCCTCAAAAGCAGATGAATCAGAGAGCTTTTTCTCAAAACTATTGCCTT
1 CTCCTCCAACAATTGACCCTCAAAAGCAGATGAAACAGAAAGCTTTTTCTCAAAACTATCACCCC
*
32550886 CTTCATTGACAACAATGCAATC
66 CTTCATAGACAACAATGCAATC
32550908 CTCCTCCAACAATTGACCCTCAAAAGCAGATGAAACAGAAAGCTTTTTCTCAAAACTATCACCCC
1 CTCCTCCAACAATTGACCCTCAAAAGCAGATGAAACAGAAAGCTTTTTCTCAAAACTATCACCCC
*
32550973 CTTCATAGACTACAAT
66 CTTCATAGACAACAAT
32550989 ATCACGTATA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.26
Consensus pattern (87 bp):
CTCCTCCAACAATTGACCCTCAAAAGCAGATGAAACAGAAAGCTTTTTCTCAAAACTATCACCCC
CTTCATAGACAACAATGCAATC
Found at i:32551871 original size:189 final size:189
Alignment explanation
Indices: 32551551--32551933 Score: 563
Period size: 189 Copynumber: 2.0 Consensus size: 189
32551541 TTCAGAAATA
32551551 GCAGCATTCCCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACCAAACTCGTCACAAT
1 GCAGCATTCCCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACCAAACTCGTCACAAT
*
32551616 TCTGGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAAGCAATGATGCTG
66 TCTAGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAAGCAATGATGCTG
*
32551681 GGTTTTCAGACTCGGATACTACCTGCCCTTGAGCTTGCTCACTGGGTCTAGTGATTGGT
131 GGTTTCCAGACTCGGATACTACCTGCCCTTGAGCTTGCTCACTGGGTCTAGTGATTGGT
* * * *** * *
32551740 GCAGCATTCTCCTTAGGCAAATCCTTCTGCGAACCTGAAACTTCATTTATGGAACTTGTCTCAAT
1 GCAGCATTCCCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACCAAACTCGTCACAAT
** * * *
32551805 T-TCAGATTCTCCTGAATCCTTTGTTTCACACTGAATCC-TCTCTACAGAATCAGGCAATGATGC
66 TCT-AGATTCTCCTGAAAACTTTGTTTCACACTGAA-CCTTATCTACACAATCAAGCAATGATGC
* * * *
32551868 TGGGTTTCCAGACTCGGATACTACCTGTCCTTGTGCTTGCTCATTTGGTCTAGTGATTGGT
129 TGGGTTTCCAGACTCGGATACTACCTGCCCTTGAGCTTGCTCACTGGGTCTAGTGATTGGT
32551929 GCAGC
1 GCAGC
32551934 CACCCTGCCG
Statistics
Matches: 173, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
188 1 0.01
189 170 0.98
190 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (189 bp):
GCAGCATTCCCCTCAGGCAAATCCTTCTGCGAACCAGAAACTTCATTTACCAAACTCGTCACAAT
TCTAGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAAGCAATGATGCTG
GGTTTCCAGACTCGGATACTACCTGCCCTTGAGCTTGCTCACTGGGTCTAGTGATTGGT
Found at i:32554612 original size:846 final size:843
Alignment explanation
Indices: 32553181--32554865 Score: 2696
Period size: 846 Copynumber: 2.0 Consensus size: 843
32553171 TTAGTATCTA
*
32553181 ATTTAATATATGAATTTTGACAATTTTTCTAATTTGGTATCTAATTTTTTATCCAATTTGATACT
1 ATTTAATATATGAATTTTGACAATTTTTCTAATTTGATATCTAATTTTTTATCCAATTTGATACT
* * *
32553246 TAAATTTATCAAATCTTATACAAATTACTTCAATATATCAATAATGTTATTTTTATATGAGTAGC
66 TAAATTTATCAAACCTTATACAAATTACTTCAATATACCAACAATGTTATTTTTATATGAGTAGC
* * * * *
32553311 AAATTATTTATGTTTGACCCATGGTTGGAAAATCGGGAATAGAAAATAATGTGAAACATAAACTT
131 AAATAATTTATGTTTGAACCACGGTTGGAAAATC-GGAATAGAAAACAATGTGAAAAATAAACTT
* *
32553376 GAGGAAAAATAACACTTAATCAAAATTATACCTTTTCGATTTGTCCAGCATGAACGCTTTGATCA
195 GAGAAAAAATAACACTTAATCAAAATTATACCTTTTCGATTTGTCCAGCATGAACGCTTTGACCA
* **
32553441 AGTAACCTCTCCGTTATCCTCAAGCTCACATCTACCAAGTATGGGCTCGCTTTGAATAAAAAAAA
260 AGTAACCTCTCCGCTATCCTCAAGCTCACATCTACCAAGTATGAACTCGCTTTGAATAAAAAAAA
* * * * *
32553506 TCACAAAATTATTCGGTCAGATAATTTTGCAATTTCTTTAAATTTCTAAGCTAAGTTGTAAATAA
325 TCACAAAATTATTCAGTCAGATAATTTCGCAATTTCTCTAAATTTCTAAGCCAAGATGTAAATAA
* * *
32553571 GAAAAATGTCTTTAGAAATTTTCTAAAATAATGTCTTTAAAGAATTTTCTCTTTACAACTTTCTC
390 GAAAAATGTCTTTAGAAATTTTCTAAAATAATGTCTTTAAAAAAATTTCTCTCTACAACTTTCTC
* * * *
32553636 TTGAATTTAATTCTATAAAAAATAACGAGTCAGGGCTCTTTTGTATAGGAAAATTTAGAGAATTC
455 TTGAATTTAATTATATAAAAAATAACAAGTCAGAGCTCTTTTGTATAGGAAAATTTAGAAAATTC
* * *
32553701 AACTACGATTAAATTTAATCATTTTAATATTAAATTAATATAATACTTATCAATATAAGTATTAA
520 AACCACGATTAAATTTAATCATTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAA
* *
32553766 ATTTAATTTAATAGTAAGATTATCAGTTTAATGTTAAATTAATAAAAAACTATCATGTATTAAAT
585 ATTTAATTTAATAGTAAGATTATCACTTTAATATTAAATTAATAAAAAACTATCATGTATTAAAT
32553831 TAAATTTAATATTAAATCTATTAAAATAA-TTTATTTTTTAAATAGTTAATGTTAAATCAAATTA
650 TAAATTTAATATTAAATCTATTAAAATAATTTTATTTTTTAAATAGTTAATGTTAAATCAAATTA
* * * * * *
32553895 TTCGGTAGAATCTCAATAAGAGTGTGATTCCTCCATTTCTCAATCGTTGAAGGACCACCCGTTGG
715 TTCGATAGAATCTCAATAAGAGTGTAATTCCTCCACTTCCCAATCATTGAAAGACCACCCGTTGG
* *
32553960 CCACCAGAATGTCATCGTTGCCGTCGCCAGTACCATCGTGTCTGATAGTGCCATCGCAGACCTG
780 CCACCAGAATGTCATCGTTGCCGCCGCCAGCACCATCGTGTCTGATAGTGCCATCGCAGACCTG
* *
32554024 ATTTAGTATATGAATTTTGACAATTTTTTTTAATTTGATATCTAATTTTTTATCCAATTTGATAC
1 ATTTAATATATGAATTTTGACAA-TTTTTCTAATTTGATATCTAATTTTTTATCCAATTTGATAC
*
32554089 TTAAATTTATCAAACCTTATACAAATTACTTCAGA-ATACCAACAATGTTATTTTTTTATGAGTA
65 TTAAATTTATCAAACCTTATACAAATTACTTCA-ATATACCAACAATGTTATTTTTATATGAGTA
*
32554153 GCAAAAATAATTTATGTTTGAACCACGGTTGGAAAATC-GAATTTGGAAAACAATGTGAAAAATA
129 GC--AAATAATTTATGTTTGAACCACGGTTGGAAAATCGGAA--TAGAAAACAATGTGAAAAATA
*
32554217 GACTTGAGAAAAAATAACACTTAATCAAAATTATACCTTTTCGATTTGTCCAGCATGAACGCTTT
190 AACTTGAGAAAAAATAACACTTAATCAAAATTATACCTTTTCGATTTGTCCAGCATGAACGCTTT
* * * *
32554282 GACCGAGTGACCTCTCCGCTATCCTCAAGCTCACATCTACCGAGTGTGAACTCGCTTTGAATAAA
255 GACCAAGTAACCTCTCCGCTATCCTCAAGCTCACATCTACCAAGTATGAACTCGCTTTGAATAAA
* *
32554347 AAAAATTCACAAAATTA-TCAGTGAGATAATTTCGTAATTTCTCTAAATTTCTAAGCCAAGATGT
320 AAAAA-TCACAAAATTATTCAGTCAGATAATTTCGCAATTTCTCTAAATTTCTAAGCCAAGATGT
*
32554411 AAATAAGAAAAA-GTCTTTAGAAATTTTCTAAAATAATGTCTTTAAAAAAATTTCTCTCTACCAC
384 AAATAAGAAAAATGTCTTTAGAAATTTTCTAAAATAATGTCTTTAAAAAAATTTCTCTCTACAAC
* * * * * *
32554475 TTTCTCTTGAATTTAATTATGTAAAAAATAACAAGTCATAGCTTTTTTGTATAAGTATAGTTTAG
449 TTTCTCTTGAATTTAATTATATAAAAAATAACAAGTCAGAGCTCTTTTGTAT-AGGAAAATTTAG
* *
32554540 AAAATTCAACCACGATTAAATTTAATCATTTTAATATTGAATTAATATAATACTTATTAAGATAA
513 AAAATTCAACCACGATTAAATTTAATCATTTTAATATTAAATTAATATAATACTTATCAAGATAA
32554605 ATATTAAATTTAATTTAATAGTAAGATTATCACTTTAATATTAAATTAATAAAAAACTATCATGT
578 ATATTAAATTTAATTTAATAGTAAGATTATCACTTTAATATTAAATTAATAAAAAACTATCATGT
32554670 ATTAAATTAAATTTAATATTAAATCTATTAAAATAATTTTATTTTTTAAATAGTTAATGTTAAAT
643 ATTAAATTAAATTTAATATTAAATCTATTAAAATAATTTTATTTTTTAAATAGTTAATGTTAAAT
*
32554735 CAAATTATTCGATAGAATCTCAATAAGAGTGTAATTCCTCCACTTCCCAATCATTGAAAGACTAC
708 CAAATTATTCGATAGAATCTCAATAAGAGTGTAATTCCTCCACTTCCCAATCATTGAAAGACCAC
**
32554800 CCGTTGGCCACCAGAATGTCATCGTTGCCGCCGCCAGCACCATTTTGTCTGATAGTGCCATCGCA
773 CCGTTGGCCACCAGAATGTCATCGTTGCCGCCGCCAGCACCATCGTGTCTGATAGTGCCATCGCA
32554865 G
838 G
32554866 GTGCCATCGT
Statistics
Matches: 771, Mismatches: 62, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
843 22 0.03
844 102 0.13
845 95 0.12
846 393 0.51
847 159 0.21
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (843 bp):
ATTTAATATATGAATTTTGACAATTTTTCTAATTTGATATCTAATTTTTTATCCAATTTGATACT
TAAATTTATCAAACCTTATACAAATTACTTCAATATACCAACAATGTTATTTTTATATGAGTAGC
AAATAATTTATGTTTGAACCACGGTTGGAAAATCGGAATAGAAAACAATGTGAAAAATAAACTTG
AGAAAAAATAACACTTAATCAAAATTATACCTTTTCGATTTGTCCAGCATGAACGCTTTGACCAA
GTAACCTCTCCGCTATCCTCAAGCTCACATCTACCAAGTATGAACTCGCTTTGAATAAAAAAAAT
CACAAAATTATTCAGTCAGATAATTTCGCAATTTCTCTAAATTTCTAAGCCAAGATGTAAATAAG
AAAAATGTCTTTAGAAATTTTCTAAAATAATGTCTTTAAAAAAATTTCTCTCTACAACTTTCTCT
TGAATTTAATTATATAAAAAATAACAAGTCAGAGCTCTTTTGTATAGGAAAATTTAGAAAATTCA
ACCACGATTAAATTTAATCATTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAAA
TTTAATTTAATAGTAAGATTATCACTTTAATATTAAATTAATAAAAAACTATCATGTATTAAATT
AAATTTAATATTAAATCTATTAAAATAATTTTATTTTTTAAATAGTTAATGTTAAATCAAATTAT
TCGATAGAATCTCAATAAGAGTGTAATTCCTCCACTTCCCAATCATTGAAAGACCACCCGTTGGC
CACCAGAATGTCATCGTTGCCGCCGCCAGCACCATCGTGTCTGATAGTGCCATCGCAGACCTG
Found at i:32555001 original size:18 final size:18
Alignment explanation
Indices: 32554978--32555012 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32554968 GAGTTAAACG
*
32554978 AATCGAATTATTCAAGTT
1 AATCGAATTATCCAAGTT
32554996 AATCGAATTATCCAAGT
1 AATCGAATTATCCAAGT
32555013 CAACTCAAAT
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:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
AATCGAATTATCCAAGTT
Found at i:32555521 original size:20 final size:20
Alignment explanation
Indices: 32555480--32555521 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32555470 TTTCCTAAAC
*
32555480 TTTTACTTCTCACTTAAAAA
1 TTTTACTTCTCACTCAAAAA
*
32555500 TTTTACTT-TCCCTCAAACAA
1 TTTTACTTCTCACTCAAA-AA
32555520 TT
1 TT
32555522 GACTTTGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTACTTCTCACTCAAAAA
Found at i:32566725 original size:23 final size:22
Alignment explanation
Indices: 32566669--32566730 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
32566659 AATATATTGT
32566669 TATTTTGATGTTGTTTTTTAAC
1 TATTTTGATGTTGTTTTTTAAC
** *
32566691 TGCTTT-AGTGTTGTTTTTTTAC
1 TATTTTGA-TGTTGTTTTTTAAC
*
32566713 TATTTTGATTGTTATTTT
1 TATTTTGA-TGTTGTTTT
32566731 GGTTTTTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 1 0.03
22 21 0.68
23 9 0.29
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.66
Consensus pattern (22 bp):
TATTTTGATGTTGTTTTTTAAC
Found at i:32566766 original size:29 final size:30
Alignment explanation
Indices: 32566691--32566767 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
32566681 GTTTTTTAAC
32566691 TGCT-TTAGTGTTGTTTTTTTACTATTTTGAT
1 TGCTATTA-TGTTG-TTTTTTACTATTTTGAT
* * * *
32566722 TGTTATTTTGGT-TTTTTTACTGTTTTGA-
1 TGCTATTATGTTGTTTTTTACTATTTTGAT
32566750 TGCTATTATGTTGTTTTT
1 TGCTATTATGTTGTTTTT
32566768 ATTGCTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
28 9 0.24
29 20 0.54
31 6 0.16
32 2 0.05
ACGTcount: A:0.12, C:0.05, G:0.17, T:0.66
Consensus pattern (30 bp):
TGCTATTATGTTGTTTTTTACTATTTTGAT
Found at i:32566767 original size:28 final size:28
Alignment explanation
Indices: 32566702--32566768 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
32566692 GCTTTAGTGT
* *
32566702 TGTTTTTTTACTATTTTGATTGTTATTT
1 TGTTTTTTTACTATTTTGATTGCTATTA
*
32566730 TGGTTTTTTTACTGTTTTGA-TGCTATTA
1 T-GTTTTTTTACTATTTTGATTGCTATTA
32566758 TGTTGTTTTTA
1 TGTT-TTTTTA
32566769 TTGCTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.09
28 14 0.41
29 17 0.50
ACGTcount: A:0.13, C:0.04, G:0.15, T:0.67
Consensus pattern (28 bp):
TGTTTTTTTACTATTTTGATTGCTATTA
Found at i:32566791 original size:17 final size:19
Alignment explanation
Indices: 32566750--32566802 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
32566740 ACTGTTTTGA
*
32566750 TGCTATTATGTTGTTTTTAT
1 TGCTATTAT-TTGTTGTTAT
32566770 TGCTATT-TTTGTTGTT-T
1 TGCTATTATTTGTTGTTAT
32566787 TGCTATTATTT-TTGTT
1 TGCTATTATTTGTTGTT
32566803 GATGTTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 13 0.42
18 10 0.32
19 1 0.03
20 7 0.23
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (19 bp):
TGCTATTATTTGTTGTTAT
Found at i:32567038 original size:38 final size:37
Alignment explanation
Indices: 32566957--32567040 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 37
32566947 ATATAAAGAA
* *
32566957 TTTTTAATGTATTTTAAATTTATTTATTTTTAATGTT
1 TTTTTAATGTATTTTAAATTTATTTATTATTAATGAT
*
32566994 TATTTTAATGT-TTTTAAGTTTATTTGATATATTATAT-AT
1 T-TTTTAATGTATTTTAAATTTATTT-AT-TATTA-ATGAT
32567033 TTTTTAAT
1 TTTTTAAT
32567041 TTGTTGTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
37 14 0.35
38 18 0.45
39 6 0.15
40 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (37 bp):
TTTTTAATGTATTTTAAATTTATTTATTATTAATGAT
Found at i:32567910 original size:17 final size:18
Alignment explanation
Indices: 32567878--32567911 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32567868 AACAATATAT
*
32567878 TATTTTTTTAAAATAAAG
1 TATTTATTTAAAATAAAG
32567896 TATTTATTT-AAATAAA
1 TATTTATTTAAAATAAA
32567912 TTACCGATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TATTTATTTAAAATAAAG
Found at i:32570196 original size:31 final size:30
Alignment explanation
Indices: 32570158--32570217 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
32570148 CTTAAATCTA
*
32570158 TTTATACAACAAATTGCTCTTTCAACTATTC
1 TTTATACAACAAATTACTCTTTCAA-TATTC
*
32570189 TTTATACAACAAATTACTGTTTCAATATT
1 TTTATACAACAAATTACTCTTTCAATATT
32570218 GCATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTATACAACAAATTACTCTTTCAATATTC
Done.