Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 126 of 143
Found at i:36985762 original size:473 final size:480
Alignment explanation
Indices: 36984856--36985767 Score: 1448
Period size: 473 Copynumber: 1.9 Consensus size: 480
36984846 TAGACCCATT
* *
36984856 TAAAGTATGGGACGGGCTCAGGTTTGAACATTTAAGGCTCGAACCCGACCCGACCCGACCCGTTT
1 TAAAATATGGGACGGGCTCAGGTTTGAACATCTAAGGCTCGAA--C-ACCCGACCCGACCCGTTT
36984921 TAAGTTTATAATACTTTATATTATGTTATTTTTATATATTAATGTAATTTAAAACACATTAAAAA
63 TAAGTTTATAATACTTTATATTATGTTATTTTTATATATTAATGTAATTTAAAACACATTAAAAA
36984986 AATAAACCTATACTAAACATATAATACATTCTAATGTAAAAATTAAAAAATATATATTAAGATAC
128 AATAAACCTATACTAAACATATAATACATTCTAATGTAAAAATT-AAAAATATATATTAAGATAC
* *
36985051 TATATACAAATTTTTAATGAATAAAAAATTTACAAAACTATTAAATATTAAAATAAAAAAATATA
192 TATATACAAATTTTCAATAAATAAAAAATTTACAAAACTATTAAATATTAAAATAAAAAAATATA
*
36985116 ATATTTTTTAAAAAAAATTAAAACTAATATGGACAGATCTAAAATGGGTTTAGGTTAGTCTTTTA
257 ATATTTTTTAAAAAAAATTAAAACTAATATGGACAGACCTAAAATGGGTTTAGGTTAGTCTTTTA
* *
36985181 CAAATATGGGCAGGTTTGAACAAAATTTTAGGCTCAGATTTCGAGCCGAGTCGAGCTTGAGCAAG
322 CAAATATGGGCAGGTTTGAACAAAATTTAAGGCCCAGATTTCGAGCCGAGTCGAGCTTGAGCAAG
* *
36985246 CATAAAATATGTCAATACCATGCTTAGGCCCGACCCAAATTCGACCCATTTAAACATCTAAGGCT
387 CATAAAATATATCAATACCATGCTTAGGCCCAACCCAAATTCGACCCATTTAAACATCTAAGGCT
36985311 CAGGTTTGAACATTTAAAATATTTAAGCA
452 CAGGTTTGAACATTTAAAATATTTAAGCA
*
36985340 TAAAATATGGGACGGGCTCAGGTTTGAACATCTAAGGCTCG-A-ACCCGACCCGATCCGTTTTAA
1 TAAAATATGGGACGGGCTCAGGTTTGAACATCTAAGGCTCGAACACCCGACCCGACCCGTTTTAA
36985403 GTTTATAATACTTTATATTATGTTATTTTTATATATTAATGTAATTTAAAACACATTAAAAAAAT
66 GTTTATAATACTTTATATTATGTTATTTTTATATATTAATGTAATTTAAAACACATTAAAAAAAT
*
36985468 AAA-CTATACTAAATATATAATACTATTCTAATGTAAAAATT-AAAA-A-ATATTAAGATGACTA
131 AAACCTATACTAAACATATAATAC-ATTCTAATGTAAAAATTAAAAATATATATTAAGAT-ACTA
* * *
36985529 TATACAAATTTTCAATAAATAAAAAATTTATAAAATTATTAAATATT-AAA-AAAAATATA-AAT
194 TATACAAATTTTCAATAAATAAAAAATTTACAAAACTATTAAATATTAAAATAAAAAAATATAAT
* * * * *
36985591 GTTTTTT-AAAAAAATTAAAAACTAATATGGGCAGGCCTAGAATGGGTTTAGGTTAGTCTTTTAT
259 ATTTTTTAAAAAAAATT-AAAACTAATATGGACAGACCTAAAATGGGTTTAGGTTAGTCTTTTAC
* *
36985655 AAATATGGGCAGGTTTGAGCAAAATTTAAGGCCCAGATTTCGAGCCGAGTCGAGCTTGGGCAAGC
323 AAATATGGGCAGGTTTGAACAAAATTTAAGGCCCAGATTTCGAGCCGAGTCGAGCTTGAGCAAGC
* * * ** *
36985720 ATAAAATATATTAATATCATGCTTAGGCCTAACCTGAATTCGATCCAT
388 ATAAAATATATCAATACCATGCTTAGGCCCAACCCAAATTCGACCCAT
36985768 GAACACCTCT
Statistics
Matches: 398, Mismatches: 27, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
472 9 0.02
473 152 0.38
474 8 0.02
475 13 0.03
476 48 0.12
477 4 0.01
478 19 0.05
479 105 0.26
483 1 0.00
484 39 0.10
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (480 bp):
TAAAATATGGGACGGGCTCAGGTTTGAACATCTAAGGCTCGAACACCCGACCCGACCCGTTTTAA
GTTTATAATACTTTATATTATGTTATTTTTATATATTAATGTAATTTAAAACACATTAAAAAAAT
AAACCTATACTAAACATATAATACATTCTAATGTAAAAATTAAAAATATATATTAAGATACTATA
TACAAATTTTCAATAAATAAAAAATTTACAAAACTATTAAATATTAAAATAAAAAAATATAATAT
TTTTTAAAAAAAATTAAAACTAATATGGACAGACCTAAAATGGGTTTAGGTTAGTCTTTTACAAA
TATGGGCAGGTTTGAACAAAATTTAAGGCCCAGATTTCGAGCCGAGTCGAGCTTGAGCAAGCATA
AAATATATCAATACCATGCTTAGGCCCAACCCAAATTCGACCCATTTAAACATCTAAGGCTCAGG
TTTGAACATTTAAAATATTTAAGCA
Found at i:36986718 original size:23 final size:24
Alignment explanation
Indices: 36986688--36986736 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
36986678 TCAAGTTTTT
*
36986688 TCTTAA-TTTTTTTATTGATGTTG
1 TCTTAATTTTTTTTATCGATGTTG
36986711 TCTTAATTTTTTTTATCGATGTTG
1 TCTTAATTTTTTTTATCGATGTTG
36986735 TC
1 TC
36986737 ATTGTCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.16, C:0.08, G:0.12, T:0.63
Consensus pattern (24 bp):
TCTTAATTTTTTTTATCGATGTTG
Found at i:36987867 original size:30 final size:29
Alignment explanation
Indices: 36987817--36987888 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
36987807 TAATGAGATC
* * *
36987817 TTTTAAAATTTCAGAAATTTACTTGAAA-
1 TTTTAAAATTTTAGAAATTTAATTAAAAT
36987845 TTTTAAAACTTTTAGAAAATTTAATTAAAAT
1 TTTTAAAA-TTTTAG-AAATTTAATTAAAAT
36987876 TTTTAAAAATTTT
1 TTTT-AAAATTTT
36987889 CAGGGACTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.22
29 5 0.14
30 12 0.32
31 8 0.22
32 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (29 bp):
TTTTAAAATTTTAGAAATTTAATTAAAAT
Found at i:36987874 original size:22 final size:21
Alignment explanation
Indices: 36987847--36987887 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
36987837 ACTTGAAATT
36987847 TTAAAACTTTTAGAAAATTTAA
1 TTAAAACTTTTA-AAAATTTAA
*
36987869 TTAAAATTTTTAAAAATTT
1 TTAAAACTTTTAAAAATTT
36987888 TCAGGGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAAACTTTTAAAAATTTAA
Found at i:36994260 original size:18 final size:19
Alignment explanation
Indices: 36994224--36994266 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
36994214 TTTTGACTTG
*
36994224 TTATTTTTTTTTAGATC-T
1 TTATATTTTTTTAGATCTT
36994242 TTATATTTTTTTA-ATTCTT
1 TTATATTTTTTTAGA-TCTT
36994261 TTATAT
1 TTATAT
36994267 ATATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATATTTTTTTAGATCTT
Found at i:36997693 original size:6 final size:6
Alignment explanation
Indices: 36997684--36997733 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
36997674 TTTTGGAAAA
* *
36997684 CTCTCC CTCTCC CTCTCC CTTTCC CTCTCC ATCTCC CTCTCC CTCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
36997732 CT
1 CT
36997734 ACAACTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.02, C:0.62, G:0.00, T:0.36
Consensus pattern (6 bp):
CTCTCC
Found at i:36997843 original size:41 final size:41
Alignment explanation
Indices: 36997793--36997875 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
36997783 TTCTTCTCTT
36997793 CCTCTGTCCTTTTCATTTTCATTAGCATTTTCGAATCAAGA
1 CCTCTGTCCTTTTCATTTTCATTAGCATTTTCGAATCAAGA
*
36997834 CCTCTGTCCTTTTCATTTTCTTTAGCATTTTCGAATCAAGA
1 CCTCTGTCCTTTTCATTTTCATTAGCATTTTCGAATCAAGA
36997875 C
1 C
36997876 TAATGACATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (41 bp):
CCTCTGTCCTTTTCATTTTCATTAGCATTTTCGAATCAAGA
Found at i:37007990 original size:196 final size:196
Alignment explanation
Indices: 37007656--37008048 Score: 750
Period size: 196 Copynumber: 2.0 Consensus size: 196
37007646 TCTTCTGAAC
*
37007656 TTGTCTTTGTTGTTCACCCAAGGTTTCTTCCCTTTGGAGTTAGAAGAGCTTGTGGTGGACTTGCC
1 TTGTCTTTGTTGTTCACCCAAGGTTTCTTCCCTTTGGAGTTAGAAGAGCTTGTGATGGACTTGCC
37007721 TTGAGCTTGAAATGCCCCTTCATGGTGCTCTACCTGTCTGCTTGCTCTTCTTTGTTCTTAAGCAT
66 TTGAGCTTGAAATGCCCCTTCATGGTGCTCTACCTGTCTGCTTGCTCTTCTTTGTTCTTAAGCAT
37007786 AAAAGGCATTGACTAACTCAGTTAGTGTAATATTTGACAGGTCTCTTGAATCTTCCAAAGAGGAG
131 AAAAGGCATTGACTAACTCAGTTAGTGTAATATTTGACAGGTCTCTTGAATCTTCCAAAGAGGAG
37007851 A
196 A
*
37007852 TTGTCTTTGTTGTTCATCCAAGGTTTCTTCCCTTTGGAGTTAGAAGAGCTTGTGATGGACTTGCC
1 TTGTCTTTGTTGTTCACCCAAGGTTTCTTCCCTTTGGAGTTAGAAGAGCTTGTGATGGACTTGCC
*
37007917 TTTAGCTTGAAATGCCCCTTCATGGTGCTCTACCTGTCTGCTTGCTCTTCTTTGTTCTTAAGCAT
66 TTGAGCTTGAAATGCCCCTTCATGGTGCTCTACCTGTCTGCTTGCTCTTCTTTGTTCTTAAGCAT
*
37007982 AAAAGGCATTGACTAACTCAGTTAGTGTAATATTTGACAGGTCTCTTGAGTCTTCCAAAGAGGAG
131 AAAAGGCATTGACTAACTCAGTTAGTGTAATATTTGACAGGTCTCTTGAATCTTCCAAAGAGGAG
37008047 A
196 A
37008048 T
1 T
37008049 CTTTGCTTCA
Statistics
Matches: 193, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 193 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (196 bp):
TTGTCTTTGTTGTTCACCCAAGGTTTCTTCCCTTTGGAGTTAGAAGAGCTTGTGATGGACTTGCC
TTGAGCTTGAAATGCCCCTTCATGGTGCTCTACCTGTCTGCTTGCTCTTCTTTGTTCTTAAGCAT
AAAAGGCATTGACTAACTCAGTTAGTGTAATATTTGACAGGTCTCTTGAATCTTCCAAAGAGGAG
A
Found at i:37016879 original size:7 final size:7
Alignment explanation
Indices: 37016867--37016894 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
37016857 GACAGAGAAT
37016867 GTGAAGA
1 GTGAAGA
37016874 GTGAAGA
1 GTGAAGA
37016881 GTGAAGA
1 GTGAAGA
37016888 GTGAAGA
1 GTGAAGA
37016895 ATAGGGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (7 bp):
GTGAAGA
Found at i:37017491 original size:14 final size:14
Alignment explanation
Indices: 37017451--37017505 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
37017441 GAAAATAATT
*
37017451 TATT-ATATTTTAT
1 TATTAATATTTTAA
37017464 TATTAATATTTTAA
1 TATTAATATTTTAA
37017478 TATATAA-ATTTTAAA
1 TAT-TAATATTTT-AA
*
37017493 TTTTAAATATTTT
1 TATT-AATATTTT
37017506 TAAGCAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 4 0.11
14 17 0.49
15 9 0.26
16 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTAATATTTTAA
Found at i:37017728 original size:18 final size:18
Alignment explanation
Indices: 37017685--37017730 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
37017675 CTTTTAGATC
* *
37017685 AAAAGTGCTTTTCATGTT
1 AAAAGTGTTTTTCACGTT
37017703 AAAAGTGTTTTTCACGTT
1 AAAAGTGTTTTTCACGTT
37017721 AAAAGTGTTT
1 AAAAGTGTTT
37017731 AAAAGCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (18 bp):
AAAAGTGTTTTTCACGTT
Found at i:37018412 original size:17 final size:20
Alignment explanation
Indices: 37018386--37018432 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 20
37018376 TCACAAGCAT
37018386 AATTAATTTT-T-TTA-GTA
1 AATTAATTTTATATTAGGTA
*
37018403 AATTATTTTTATATTAGGTA
1 AATTAATTTTATATTAGGTA
37018423 AATTACATTT
1 AATTA-ATTT
37018433 GTAATCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 1 0.04
19 3 0.12
20 8 0.33
21 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
AATTAATTTTATATTAGGTA
Found at i:37022433 original size:15 final size:15
Alignment explanation
Indices: 37022415--37022444 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37022405 TGGTCACCTA
*
37022415 AGTTTTGACATGTTC
1 AGTTTTAACATGTTC
37022430 AGTTTTAACATGTTC
1 AGTTTTAACATGTTC
37022445 CTATTTTGGT
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:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (15 bp):
AGTTTTAACATGTTC
Found at i:37030501 original size:14 final size:14
Alignment explanation
Indices: 37030482--37030510 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37030472 AACTTCATGC
37030482 ACTGTGGGGAAAGA
1 ACTGTGGGGAAAGA
37030496 ACTGTGGGGAAAGA
1 ACTGTGGGGAAAGA
37030510 A
1 A
37030511 AATAAAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.41, T:0.14
Consensus pattern (14 bp):
ACTGTGGGGAAAGA
Found at i:37042083 original size:17 final size:18
Alignment explanation
Indices: 37042056--37042089 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37042046 AAAGCAAAGG
*
37042056 ATTTGTATCTTCATAACC
1 ATTTGTATCTTAATAACC
37042074 ATTT-TATCTTAATAAC
1 ATTTGTATCTTAATAAC
37042090 TGCAACAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTGTATCTTAATAACC
Found at i:37050665 original size:29 final size:29
Alignment explanation
Indices: 37050619--37050784 Score: 146
Period size: 30 Copynumber: 5.7 Consensus size: 29
37050609 TTTGACTTTC
* *
37050619 GGGGGTAAGATGGTAATTTTTGGTGAAATT
1 GGGGTTAAAATGG-AATTTTTGGTGAAATT
*
37050649 GGGGTTAAAAT-GAAATTTT-G-GAAAGTT
1 GGGGTTAAAATGGAATTTTTGGTGAAA-TT
* * *
37050676 CGGGGGTAAGATGGTAATTTTTGGTGAAATC
1 -GGGGTTAAAATGG-AATTTTTGGTGAAATT
37050707 GGGGTTAAAAATGGAA-TTTT-G-GAAAGTTT
1 GGGGTT-AAAATGGAATTTTTGGTGAAA--TT
* *
37050736 GGGGGTAAAATGGTAATTTTTGGTGAAATA
1 GGGGTTAAAATGG-AATTTTTGGTGAAATT
37050766 GGGGTTAAAATGGAATTTT
1 GGGGTTAAAATGGAATTTT
37050785 GGAAAGTTTG
Statistics
Matches: 110, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
26 4 0.04
27 7 0.06
28 23 0.21
29 20 0.18
30 39 0.35
31 9 0.08
32 8 0.07
ACGTcount: A:0.31, C:0.01, G:0.33, T:0.34
Consensus pattern (29 bp):
GGGGTTAAAATGGAATTTTTGGTGAAATT
Found at i:37050690 original size:58 final size:58
Alignment explanation
Indices: 37050616--37050792 Score: 300
Period size: 58 Copynumber: 3.0 Consensus size: 58
37050606 AATTTTGACT
* *
37050616 TTCGGGGGTAAGATGGTAATTTTTGGTGAAATTGGGGTTAAAATGAAATTTTGGAAAG
1 TTCGGGGGTAAGATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAG
*
37050674 TTCGGGGGTAAGATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAGATGGTAATTTTTGGTGAAATAGGGGTT-AAAATGGAATTTTGGAAAG
* *
37050733 TTTGGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAGATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAG
37050791 TT
1 TT
37050793 TGAGGGTCAA
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
58 59 0.52
59 54 0.48
ACGTcount: A:0.31, C:0.02, G:0.33, T:0.34
Consensus pattern (58 bp):
TTCGGGGGTAAGATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAG
Found at i:37050799 original size:29 final size:28
Alignment explanation
Indices: 37050647--37050823 Score: 128
Period size: 30 Copynumber: 6.1 Consensus size: 28
37050637 TTTGGTGAAA
*
37050647 TTGGGGTTAAAATGAAATTTTGGAAAGT
1 TTGGGGTTAAAATGGAATTTTGGAAAGT
* * *
37050675 TCGGGGGTAAGATGGTAATTTTTGGTGAAA--
1 TTGGGGTTAAAATGG-AA-TTTT-G-GAAAGT
*
37050705 TCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TTGGGGTT-AAAATGGAATTTTGGAAAGT
*
37050734 TTGGGGGTAAAATGGTAATTTTTGGTGAAA--
1 TTGGGGTTAAAATGG-AA-TTTT-G-GAAAGT
*
37050764 TAGGGGTTAAAATGGAATTTTGGAAAGT
1 TTGGGGTTAAAATGGAATTTTGGAAAGT
* ** *
37050792 TTGAGGGTCAAAATATAATTTTTGAATAGT
1 TTG-GGGTTAAAATGGAATTTTGGAA-AGT
37050822 TT
1 TT
37050824 AGGGACCTAT
Statistics
Matches: 119, Mismatches: 15, Indels: 28
0.73 0.09 0.17
Matches are distributed among these distances:
26 4 0.03
27 5 0.04
28 25 0.21
29 34 0.29
30 35 0.29
31 8 0.07
32 8 0.07
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.36
Consensus pattern (28 bp):
TTGGGGTTAAAATGGAATTTTGGAAAGT
Found at i:37050811 original size:58 final size:58
Alignment explanation
Indices: 37050619--37050815 Score: 297
Period size: 58 Copynumber: 3.4 Consensus size: 58
37050609 TTTGACTTTC
* * * *
37050619 GGGGGTAAGATGGTAATTTTTGGTGAAATTGGGGTTAAAATGAAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTT
* *
37050677 GGGGGTAAGATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTT-AAAATGGAATTTTGGAAAGTTT
37050736 GGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTT
* *
37050794 GAGGGTCAAAAT-ATAATTTTTG
1 GGGGGT-AAAATGGTAATTTTTG
37050816 AATAGTTTAG
Statistics
Matches: 130, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
58 71 0.55
59 59 0.45
ACGTcount: A:0.32, C:0.02, G:0.32, T:0.35
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAATGGAATTTTGGAAAGTTT
Found at i:37051281 original size:19 final size:19
Alignment explanation
Indices: 37051259--37051295 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37051249 CATTTTAGGT
*
37051259 TTTTTTATTTATTTTTTCA
1 TTTTTCATTTATTTTTTCA
*
37051278 TTTTTCATTTCTTTTTTC
1 TTTTTCATTTATTTTTTC
37051296 CCAAAAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCATTTATTTTTTCA
Found at i:37051884 original size:3 final size:3
Alignment explanation
Indices: 37051876--37051971 Score: 57
Period size: 3 Copynumber: 31.0 Consensus size: 3
37051866 ATTACGTTAT
* * * * *
37051876 TTA TTA TTA TTA ATG CTA TTA TTA TTA TTAA TCA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
* * * * * * *
37051922 ATA TTTA TTG GTA TTGT TTA TTA TTA TAA TTA TTA ATA ATA TTA TTA
1 TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37051969 TTA
1 TTA
37051972 GTAGCATTTA
Statistics
Matches: 69, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:37053417 original size:62 final size:63
Alignment explanation
Indices: 37053291--37053418 Score: 204
Period size: 62 Copynumber: 2.0 Consensus size: 63
37053281 TTCCATCAAT
* * * *
37053291 ATAGGGTCAAAGGTGTTATAATGATAGATTTTTTGGTATTTACCAACGGATTTTTGGCCGTCG
1 ATAGGATCAAAGGTGTTATAATGATAGATTTTTTGATATTTACCAACGAATTTTTGACCGTCG
*
37053354 ATAGGATCAAAGGTGTTATAATGATAGA-TTTTTGATATTTACTAACGAATTTTTGACCGTCG
1 ATAGGATCAAAGGTGTTATAATGATAGATTTTTTGATATTTACCAACGAATTTTTGACCGTCG
37053416 ATA
1 ATA
37053419 AATGGCATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
62 33 0.55
63 27 0.45
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (63 bp):
ATAGGATCAAAGGTGTTATAATGATAGATTTTTTGATATTTACCAACGAATTTTTGACCGTCG
Found at i:37067222 original size:29 final size:29
Alignment explanation
Indices: 37067111--37067445 Score: 136
Period size: 30 Copynumber: 11.4 Consensus size: 29
37067101 AATTAATTAG
* *
37067111 AAATTATATTTTGACCCCAAAATTTTCTAA
1 AAATTACATTTTGACCCCAAAA-CTTCTAA
* ** *
37067141 AAATTACATTTTAACCCTCGAACCCCTCT-A
1 AAATTACATTTTGACCC-C-AAAACTTCTAA
** * *
37067171 AAATTACATTTTTGACCTTAAAATTTCTGA
1 AAATTACA-TTTTGACCCCAAAACTTCTAA
* * *
37067201 AAATTATATTTTGACCCCAAAACTACCAA
1 AAATTACATTTTGACCCCAAAACTTCTAA
* *
37067230 AAATTACTATTTTGACCCTAAAACTTC-CA
1 AAATTAC-ATTTTGACCCCAAAACTTCTAA
* ** * *
37067259 AAATTCCATTTTGA-CCC-TGATTTCACCAA
1 AAATTACATTTTGACCCCAAAACTT--CTAA
* * *
37067288 AAATCACCATTTT-A-CCCTAAACTT-TCCA
1 AAATTA-CATTTTGACCCCAAAACTTCT-AA
* * **
37067316 AAATTCCATTTTTGACCCC-GATTTTAACT-A
1 AAATTACA-TTTTGACCCCAAAACTT--CTAA
* *
37067346 AAATTATCATTTT-ACCCCTAAACTT-TCCA
1 AAATTA-CATTTTGACCCCAAAACTTCT-AA
* * *
37067375 AAATTCCATTTTTGACCCCGAAACTTCCAA
1 AAATTACA-TTTTGACCCCAAAACTTCTAA
*
37067405 AAATTACCATTTTGACCCAAAAACTTCT-A
1 AAATTA-CATTTTGACCCCAAAACTTCTAA
*
37067434 AAATTCCATTTT
1 AAATTACATTTT
37067446 TAACCTCGAT
Statistics
Matches: 225, Mismatches: 55, Indels: 52
0.68 0.17 0.16
Matches are distributed among these distances:
26 3 0.01
27 5 0.02
28 25 0.11
29 67 0.30
30 107 0.48
31 15 0.07
32 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
AAATTACATTTTGACCCCAAAACTTCTAA
Found at i:37067287 original size:58 final size:56
Alignment explanation
Indices: 37067225--37067561 Score: 297
Period size: 58 Copynumber: 5.8 Consensus size: 56
37067215 CCCCAAAACT
*
37067225 ACCAAAAATTACTATTTTGACCCTAAAACTTCCAAAATTCCATTTTGACCCTGATTTC
1 ACCAAAAATTACCATTTT-ACCCT-AAACTTCCAAAATTCCATTTTGACCCTGATTTC
* * *
37067283 ACCAAAAATCACCATTTTACCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
1 ACCAAAAATTACCATTTTACCCTAAAC-TTCCAAAATTCCA-TTTTGACCCTGATTTC
* * * * *
37067341 AACTAAAATTATCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGAAACTT-
1 ACCAAAAATTACCATTTTA-CCCTAAAC-TTCCAAAATTCCA-TTTTGACCCTG--ATTTC
* * * *
37067401 -CCAAAAATTACCATTTTGACCCAAAAACTTCTAAAATTCCATTTTTAACCTCGATTTC
1 ACCAAAAATTACCATTTT-ACCC-TAAACTTCCAAAATTCCATTTTGACCCT-GATTTC
* * * *
37067459 ACCAAAAATCACCATTTTATCCTCAAACTTCCAAAATTCCATTTTAACCCTAAAACTTT-
1 ACCAAAAATTACCATTTTACCCT-AAACTTCCAAAATTCCATTTTGACCCT--GA-TTTC
* * *
37067518 --CAAAAATTACCACTTTACCCCCAAACTTTCTAAAATTCCATTTT
1 ACCAAAAATTACCATTTTA-CCCTAAAC-TTCCAAAATTCCATTTT
37067562 TAACCTCGAA
Statistics
Matches: 233, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
56 4 0.02
57 40 0.17
58 97 0.42
59 81 0.35
60 8 0.03
61 3 0.01
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (56 bp):
ACCAAAAATTACCATTTTACCCTAAACTTCCAAAATTCCATTTTGACCCTGATTTC
Found at i:37067389 original size:59 final size:56
Alignment explanation
Indices: 37067226--37067591 Score: 317
Period size: 59 Copynumber: 6.3 Consensus size: 56
37067216 CCCAAAACTA
* * * *
37067226 CCAAAAATTACTATTTTGACCCTAAAACTTCCAAAATTCCA-TTTTGACCCTGATTTCA
1 CCAAAAATTACCATTTT-ACCCT-AAACTTCCAAAATTCCATTTTTAACCCCGATTT-T
* *
37067284 CCAAAAATCACCATTTTACCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATTTT
1 CCAAAAATTACCATTTTACCCTAAAC-TTCCAAAATTCCATTTTTAACCCCGATTTT
* * * * **
37067341 AACTAAAATTATCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGACCCCGAAACTT
1 -CCAAAAATTACCATTTTA-CCCTAAAC-TTCCAAAATTCCATTTTTAACCCCG-ATTTT
* * * *
37067401 CCAAAAATTACCATTTTGACCCAAAAACTTCTAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTT-ACCC-TAAACTTCCAAAATTCCATTTTTAACCCCGATTT-T
* * ** *
37067460 CCAAAAATCACCATTTTATCCTCAAACTTCCAAAATTCCA-TTTTAACCCTAAAACTTT
1 CCAAAAATTACCATTTTACCCT-AAACTTCCAAAATTCCATTTTTAACCC--CGATTTT
* * * *
37067518 -CAAAAATTACCACTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGAATTTT
1 CCAAAAATTACCATTTTA-CCCTAAAC-TTCCAAAATTCCATTTTTAACCCCG-ATTTT
*
37067576 CCTAAAATTA-CATTTT
1 CCAAAAATTACCATTTT
37067592 CGCCATCGAA
Statistics
Matches: 252, Mismatches: 40, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
56 4 0.02
57 45 0.18
58 87 0.35
59 108 0.43
60 8 0.03
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (56 bp):
CCAAAAATTACCATTTTACCCTAAACTTCCAAAATTCCATTTTTAACCCCGATTTT
Found at i:37067399 original size:30 final size:28
Alignment explanation
Indices: 37067294--37067561 Score: 142
Period size: 29 Copynumber: 9.2 Consensus size: 28
37067284 CCAAAAATCA
*
37067294 CCATTTTA-CCCTAAACTTTCCAAAATT
1 CCATTTTACCCCGAAACTTTCCAAAATT
* *
37067321 CCATTTTTGACCCCG--ATTTTAACTAAAATT
1 CCA-TTTT-ACCCCGAAACTTT--CCAAAATT
* *
37067351 ATCATTTTACCCCTAAACTTTCCAAAATT
1 -CCATTTTACCCCGAAACTTTCCAAAATT
37067380 CCATTTTTGACCCCGAAAC-TTCCAAAAATT
1 CCA-TTTT-ACCCCGAAACTTTCC-AAAATT
** *
37067410 ACCATTTTGACCCAAAAAC-TTCTAAAATT
1 -CCATTTT-ACCCCGAAACTTTCCAAAATT
* *
37067439 CCATTTTTAACCTCG--A-TTTCACCAAAAATCA
1 CCA-TTTT-ACCCCGAAACTTT--CC-AAAAT-T
*
37067470 CCATTTTATCCTC-AAAC-TTCCAAAATT
1 CCATTTTA-CCCCGAAACTTTCCAAAATT
** *
37067497 CCATTTTAACCCTAAAACTTTCAAAAATT
1 CCATTTT-ACCCCGAAACTTTCCAAAATT
* * *
37067526 ACCACTTTACCCCCAAACTTTCTAAAATT
1 -CCATTTTACCCCGAAACTTTCCAAAATT
37067555 CCATTTT
1 CCATTTT
37067562 TAACCTCGAA
Statistics
Matches: 188, Mismatches: 27, Indels: 51
0.71 0.10 0.19
Matches are distributed among these distances:
27 15 0.08
28 29 0.15
29 65 0.35
30 64 0.34
31 15 0.08
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (28 bp):
CCATTTTACCCCGAAACTTTCCAAAATT
Found at i:37067493 original size:29 final size:28
Alignment explanation
Indices: 37067220--37067561 Score: 114
Period size: 30 Copynumber: 11.8 Consensus size: 28
37067210 TTTGACCCCA
* * *
37067220 AAACTACCAAAAATTACTATTTTGACCCTA
1 AAACTTCCAAAAA-TACCATTTT-ACCCTC
*
37067250 AAACTTCC-AAAATTCCATTTTGACCCT-
1 AAACTTCCAAAAATACCATTTT-ACCCTC
* *
37067277 -GATTTCACCAAAAATCACCATTTTACCCT-
1 AAACTT--CCAAAAAT-ACCATTTTACCCTC
*
37067306 AAACTTTCC-AAAATTCCATTTTTGACCC-C
1 AAAC-TTCCAAAAATACCA-TTTT-ACCCTC
* ** * * *
37067335 GATTTTAACTAAAATTATCATTTTACCC-C
1 AAACTT--CCAAAAATACCATTTTACCCTC
*
37067364 TAAACTTTCC-AAAATTCCATTTTTGACCC-C
1 -AAAC-TTCCAAAAATACCA-TTTT-ACCCTC
**
37067394 GAAACTTCCAAAAATTACCATTTTGACCCAA
1 -AAACTTCCAAAAA-TACCATTTT-ACCCTC
* * *
37067425 AAACTT-CTAAAATTCCATTTTTAACCTC
1 AAACTTCCAAAAATACCA-TTTTACCCTC
* * *
37067453 -GATTTCACCAAAAATCACCATTTTATCCTC
1 AAACTT--CCAAAAAT-ACCATTTTACCCTC
* *
37067483 AAACTTCC-AAAATTCCATTTTAACCCTA
1 AAACTTCCAAAAATACCATTTT-ACCCTC
* * *
37067511 AAACTTTCAAAAATTACCACTTTACCCCC
1 AAACTTCCAAAAA-TACCATTTTACCCTC
* * *
37067540 AAACTTTCTAAAATTCCATTTT
1 AAACTTCCAAAAATACCATTTT
37067562 TAACCTCGAA
Statistics
Matches: 235, Mismatches: 49, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
26 3 0.01
27 13 0.06
28 62 0.26
29 66 0.28
30 71 0.30
31 20 0.09
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (28 bp):
AAACTTCCAAAAATACCATTTTACCCTC
Found at i:37067526 original size:175 final size:174
Alignment explanation
Indices: 37067209--37067591 Score: 495
Period size: 175 Copynumber: 2.2 Consensus size: 174
37067199 GAAAATTATA
* * * * *
37067209 TTTTGACCCCAAAACTACCAAAAATTACTATTTTGACCCTAAAACTTCCAAAATTCCATTTTGAC
1 TTTTGACCCCGAAACTTCCAAAAATTACCATTTTGACCCAAAAACTTCCAAAATTCCATTTTGAA
* ** *
37067274 CCTGATTTCACCAAAAATCACCATTTTACCCTAAACTTTCCAAAATTCCATTTTTGACCCCGATT
66 CCTGATTTCACCAAAAATCACCATTTTACCCTAAACTTTCCAAAATTCCATTTTTAACCCAAACT
* * * *
37067339 TTAACTAAAATTATCATTTTACCCCTAAACTTTCCAAAATTCCAT
131 TT-ACAAAAATTACCACTTTACCCCCAAACTTTCCAAAATTCCAT
* *
37067384 TTTTGACCCCGAAACTTCCAAAAATTACCATTTTGACCCAAAAACTTCTAAAATTCCATTTTTAA
1 TTTTGACCCCGAAACTTCCAAAAATTACCATTTTGACCCAAAAACTTCCAAAATTCCATTTTGAA
*
37067449 CCTCGATTTCACCAAAAATCACCATTTTATCCTCAAAC-TTCCAAAATTCCA-TTTTAACCCTAA
66 CCT-GATTTCACCAAAAATCACCATTTTACCCT-AAACTTTCCAAAATTCCATTTTTAACCC--A
*
37067512 AACTTT-CAAAAATTACCACTTTACCCCCAAACTTTCTAAAATTCCAT
127 AACTTTACAAAAATTACCACTTTACCCCCAAACTTTCCAAAATTCCAT
* * ** *
37067559 TTTTAACCTCGAATTTTCCTAAAATTA-CATTTT
1 TTTTGACCCCGAAACTTCCAAAAATTACCATTTT
37067592 CGCCATCGAA
Statistics
Matches: 182, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
174 6 0.03
175 127 0.70
176 41 0.23
177 8 0.04
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (174 bp):
TTTTGACCCCGAAACTTCCAAAAATTACCATTTTGACCCAAAAACTTCCAAAATTCCATTTTGAA
CCTGATTTCACCAAAAATCACCATTTTACCCTAAACTTTCCAAAATTCCATTTTTAACCCAAACT
TTACAAAAATTACCACTTTACCCCCAAACTTTCCAAAATTCCAT
Found at i:37067563 original size:29 final size:29
Alignment explanation
Indices: 37067297--37067591 Score: 133
Period size: 30 Copynumber: 10.1 Consensus size: 29
37067287 AAAATCACCA
* *
37067297 TTTTA-CCCTAAACTTTCCAAAATTCCAT
1 TTTTACCCCCAAACTTTCTAAAATTCCAT
* * *
37067325 TTTTGA-CCCC-GATTTTAACTAAAATTATCA-
1 TTTT-ACCCCCAAACTTT--CTAAAATT-CCAT
* *
37067355 TTTTACCCCTAAACTTTCCAAAATTCCAT
1 TTTTACCCCCAAACTTTCTAAAATTCCAT
* * *
37067384 TTTTGACCCCGAAACTTCCAAAAATTACCAT
1 TTTT-ACCCCCAAACTTTCTAAAATT-CCAT
* **
37067415 TTTGACCCAAAAAC-TTCTAAAATTCCAT
1 TTTTACCCCCAAACTTTCTAAAATTCCAT
* * * * *
37067443 TTTTAACCTC-GA-TTTCACCAAAAATCACCA-
1 TTTTACCCCCAAACTTT---CTAAAAT-TCCAT
* * *
37067473 TTTTATCCTCAAAC-TTCCAAAATTCCAT
1 TTTTACCCCCAAACTTTCTAAAATTCCAT
* ** *
37067501 TTTAACCCTAAAACTTTCAAAAATTACCA-
1 TTTTACCCCCAAACTTTCTAAAATT-CCAT
*
37067530 CTTTACCCCCAAACTTTCTAAAATTCCAT
1 TTTTACCCCCAAACTTTCTAAAATTCCAT
* * * * *
37067559 TTTTAACCTCGAATTTTCCTAAAATTACAT
1 TTTTACCCCCAAACTTT-CTAAAATTCCAT
37067589 TTT
1 TTT
37067592 CGCCATCGAA
Statistics
Matches: 202, Mismatches: 44, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
27 6 0.03
28 40 0.20
29 65 0.32
30 72 0.36
31 19 0.09
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTTACCCCCAAACTTTCTAAAATTCCAT
Found at i:37067583 original size:30 final size:29
Alignment explanation
Indices: 37067294--37067591 Score: 131
Period size: 29 Copynumber: 10.2 Consensus size: 29
37067284 CCAAAAATCA
*
37067294 CCATTTTACCCT-AAACTTTCC-AAAATT
1 CCATTTTAACCTCAAACTTTCCTAAAATT
* ** * *
37067321 CCATTTTTGACC-CCGATTTTAACTAAAATT
1 CCA-TTTTAACCTCAAACTTT-CCTAAAATT
* *
37067351 ATCATTTT-ACCCCTAAACTTTCC-AAAATT
1 -CCATTTTAACCTC-AAACTTTCCTAAAATT
* * *
37067380 CCATTTTTGACCCCGAAAC-TTCCAAAAATT
1 CCA-TTTTAACCTC-AAACTTTCCTAAAATT
*
37067410 ACCATTTTGACC-CAAAAAC-TT-CTAAAATT
1 -CCATTTTAACCTC--AAACTTTCCTAAAATT
* * *
37067439 CCATTTTTAACCTC-GA-TTTCACCAAAAATCA
1 CCA-TTTTAACCTCAAACTTT--CCTAAAAT-T
*
37067470 CCATTTTATCCTCAAAC-TTCC-AAAATT
1 CCATTTTAACCTCAAACTTTCCTAAAATT
* *
37067497 CCATTTTAACCCTAAAACTTT-CAAAAATT
1 CCATTTTAA-CCTCAAACTTTCCTAAAATT
* * *
37067526 ACCACTTTACCCCCAAACTTT-CTAAAATT
1 -CCATTTTAACCTCAAACTTTCCTAAAATT
* *
37067555 CCATTTTTAACCTCGAATTTTCCTAAAATT
1 CCA-TTTTAACCTCAAACTTTCCTAAAATT
*
37067585 ACATTTT
1 CCATTTT
37067592 CGCCATCGAA
Statistics
Matches: 209, Mismatches: 35, Indels: 52
0.71 0.12 0.18
Matches are distributed among these distances:
27 14 0.07
28 31 0.15
29 75 0.36
30 74 0.35
31 15 0.07
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
CCATTTTAACCTCAAACTTTCCTAAAATT
Found at i:37079945 original size:200 final size:201
Alignment explanation
Indices: 37079595--37080034 Score: 643
Period size: 200 Copynumber: 2.2 Consensus size: 201
37079585 AAATAGTGGG
* * * * *
37079595 GGCGGTAATCTTCCCGATGAGATACAGAGAAGAATACCAATTCAACGCTCAAAGCGAGCAAATCT
1 GGCGGTCATCTTCCTGATGAGACACAGAGAAGAACACCAACTCAACGCTCAAAGCGAGCAAATCT
* * *
37079660 TCGAACCCAACTTCCTGATGAGACACTGAGAAGTAGGTCGAAACAATAAAATGGTTAGCTTTCTG
66 TCGAACCCAACTTCCTGATGAAACACTGAGAAGTAGGTCGAAACAATAAAAAGGTTAGCTTCCTG
* *
37079725 ATGAGACACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACA
131 ATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAACA
37079790 -AGTAA-
196 GA-TAAT
* * *
37079795 GGTGGTCATCTTCCTGATGAGACACAGAGAAGAACACCAACTCAATGCTCAATGCGAGCAAATCT
1 GGCGGTCATCTTCCTGATGAGACACAGAGAAGAACACCAACTCAACGCTCAAAGCGAGCAAATCT
* * *
37079860 TCGAACCCAGCTTCCTGATGAAACATTGAGAAGCT-GGTCGAAGCAATAAAAAGGTTAGCTTCCT
66 TCGAACCCAACTTCCTGATGAAACACTGAGAAG-TAGGTCGAAACAATAAAAAGGTTAGCTTCCT
** *
37079924 GATGAGGTACAGAGAAGTGGACCGAATTCGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAAC
130 GATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAAC
37079989 AGATAAT
195 AGATAAT
* * *
37079996 TGCGGTCATCTTCCTGATAAGACACAGAGAAGAAGACCA
1 GGCGGTCATCTTCCTGATGAGACACAGAGAAGAACACCA
37080035 GGTTAATGAA
Statistics
Matches: 214, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
200 177 0.83
201 37 0.17
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (201 bp):
GGCGGTCATCTTCCTGATGAGACACAGAGAAGAACACCAACTCAACGCTCAAAGCGAGCAAATCT
TCGAACCCAACTTCCTGATGAAACACTGAGAAGTAGGTCGAAACAATAAAAAGGTTAGCTTCCTG
ATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGCGAATTAAAACA
GATAAT
Found at i:37080422 original size:17 final size:17
Alignment explanation
Indices: 37080400--37080459 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
37080390 GTTAAAATGG
*
37080400 ATTTAAATTTATTTTAA
1 ATTTAAATTTAATTTAA
** *
37080417 ATTTAAATTTGCTCTAA
1 ATTTAAATTTAATTTAA
* *
37080434 ATTTAAGTTTAATTGAA
1 ATTTAAATTTAATTTAA
37080451 ATTTAAATT
1 ATTTAAATT
37080460 GATATTAACC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (17 bp):
ATTTAAATTTAATTTAA
Found at i:37081237 original size:16 final size:16
Alignment explanation
Indices: 37081216--37081248 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37081206 GATTAATTTC
37081216 ATTAATATTATTAATA
1 ATTAATATTATTAATA
*
37081232 ATTAATATTCTTAATA
1 ATTAATATTATTAATA
37081248 A
1 A
37081249 CGATTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTAATATTATTAATA
Found at i:37082422 original size:30 final size:29
Alignment explanation
Indices: 37082386--37082555 Score: 128
Period size: 30 Copynumber: 5.8 Consensus size: 29
37082376 TAAACTATTC
*
37082386 AAAAATTATATTTTGACCCCAAAATTTTCT
1 AAAAATTATATTTTGACCCCAAAA-CTTCT
* * ** *
37082416 AAAAATTACATTTTAACCCTCGAACCCCTCT
1 AAAAATTATATTTTGACCC-C-AAAACTTCT
* * * *
37082447 -AAAATTACAATTTTAACCCTAAAATTTCT
1 AAAAATTA-TATTTTGACCCCAAAACTTCT
* * *
37082476 AAAAAGTATATTTTGACCCCAAAACTACC
1 AAAAATTATATTTTGACCCCAAAACTTCT
*
37082505 AAAAATTACTATTTTTACCCCAAAACTTC-
1 AAAAATTA-TATTTTGACCCCAAAACTTCT
* **
37082534 CAAAATTCCATTTTGACCCCAA
1 AAAAATTATATTTTGACCCCAA
37082556 TTTTACCTAA
Statistics
Matches: 109, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
28 12 0.11
29 33 0.30
30 48 0.44
31 14 0.13
32 2 0.02
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAATTATATTTTGACCCCAAAACTTCT
Found at i:37082568 original size:58 final size:56
Alignment explanation
Indices: 37082501--37082691 Score: 197
Period size: 57 Copynumber: 3.3 Consensus size: 56
37082491 ACCCCAAAAC
* *
37082501 TACCAAAAATTACTATTTTTACCCCAAAAC-TTCCAAAATTCCATTTTGACCCCAATTT
1 TACC-AAAATTACCA-TTTTACCCC-AAACTTTCCAAAATTCCATTTTAACCCCAATTT
* * * ** *
37082559 TACCTAAAATTACCATTTAACCCTAAACTTTTCAAAATTTTATTTTAACCCTAATTT
1 TACC-AAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTAACCCCAATTT
* *
37082616 CACCCAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCCGAATTT
1 TACCAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCA-TTTTAACCCC-AATTT
* *
37082675 TTCCGAAATTA-CATTTT
1 TACCAAAATTACCATTTT
37082692 CGCCATCGAG
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
56 20 0.18
57 48 0.44
58 28 0.26
59 13 0.12
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (56 bp):
TACCAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTAACCCCAATTT
Found at i:37082615 original size:57 final size:58
Alignment explanation
Indices: 37082445--37082654 Score: 194
Period size: 57 Copynumber: 3.6 Consensus size: 58
37082435 TCGAACCCCT
* * * * ***
37082445 CTAAAATTACAATTTTAACCCTAAAATTTCTAAAAAGTATATTTTGACCCCAAAACTAC
1 CTAAAATTACCATTTTAACCCTAAACTTTC-CAAAATTATATTTTGACCCCAATTTTAC
* * * * **
37082504 CAAAAATTACTATTTTTACCCCAAAAC-TTCCAAAATTCCATTTTGACCCCAATTTTAC
1 CTAAAATTACCA-TTTTAACCCTAAACTTTCCAAAATTATATTTTGACCCCAATTTTAC
* * * * *
37082562 CTAAAATTACCA-TTTAACCCTAAACTTTTCAAAATTTTATTTTAACCCTAATTTCAC
1 CTAAAATTACCATTTTAACCCTAAACTTTCCAAAATTATATTTTGACCCCAATTTTAC
*
37082619 C-CAAATTACCATTTT-ACCCTCAAACTTTCCAAAATT
1 CTAAAATTACCATTTTAACCCT-AAACTTTCCAAAATT
37082655 CCATTTTTAA
Statistics
Matches: 123, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
56 25 0.20
57 43 0.35
58 31 0.25
59 13 0.11
60 11 0.09
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.35
Consensus pattern (58 bp):
CTAAAATTACCATTTTAACCCTAAACTTTCCAAAATTATATTTTGACCCCAATTTTAC
Found at i:37088190 original size:30 final size:30
Alignment explanation
Indices: 37088156--37088232 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
37088146 AGACATATTT
*
37088156 TTAAGAAAAGAATTATTCATAACACAAAGG
1 TTAAGAAAAGAATTATTCAAAACACAAAGG
* **
37088186 TTAAGAAAAGAATTATTCAAAACACATATT
1 TTAAGAAAAGAATTATTCAAAACACAAAGG
37088216 TTAAGAAAAGAATTATT
1 TTAAGAAAAGAATTATT
37088233 GATCATGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (30 bp):
TTAAGAAAAGAATTATTCAAAACACAAAGG
Found at i:37094514 original size:405 final size:399
Alignment explanation
Indices: 37093561--37095008 Score: 1610
Period size: 405 Copynumber: 3.6 Consensus size: 399
37093551 TAGGGAGACT
* * * * * *
37093561 GAGACCAGTGTGGAACTGCCTGTTCTTGAAGCAAGATCAGTAGAGGACATTGATTTGGCATTTAA
1 GAGACCAATGCGGAGCTGCCTGTTCTTGAAGCAAGATCAGTTGAAGACATTGATTTGGCTTTTAA
* *
37093626 GCAACTTCATGAAGGAGCGGATGTTGAGGAAGTAATTCTTCCAAGTATGATT-AGGAATCAGCCG
66 GCAACTTCATGAAGGAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGA-GAATCAGCCG
* * *
37093690 GATCATGCAGATACCAAC-TCGGATTTACCTGTTGTCGAGGCGAGATCTCTGGAGGATATACATA
130 GATCATGAAGATACC-ACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATA
* * * *
37093754 ATGCTTTGCAACAAGACCCAGAACCTAATCTAGCTCAGCTGCCACATTCCA-CAGACTTGAGGAA
194 ATGCTTTCCAAAAAGAACCAGAACCTAATC-AGCTGAGCTGCCACATT-CAGCAGACTTGAGGAA
* * ** *** *
37093818 TGGATCATCAGAAGTAGAGCAGCATGTTGTTGTTTCTTCTGAAGAGATCAAAGTTAATAATGCTG
257 TGGATCATCAGAAGTAGAGCAGCATGATGTGGTTTC-TCT-AAGAGATTGAAGTTGGCAATGCAG
** * * *
37093883 TCTCTGG-TATTGAAGAAGGT-TGTGATAA-TGCTGCTGGTGAACCCAAAAATG-AA-GAAGAAA
320 TCTCTGGCT-TTGAAGAAAATAT-TCAGAATTGCTGCTGGTGAACCAAAAAATGAAATGAAGAAA
* * *
37093943 TAGAAGAACTAAAGACG
383 TAGAAGAAATGAAGATG
* * * * *
37093960 GAGACCAATGTGGAGCTACCGGTTCTTGAAGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAA
1 GAGACCAATGCGGAGCTGCCTGTTCTTGAAGCAAGATCAGTTGAAGACATTGATTTGGCTTTTAA
* *
37094025 GCAACTTCATGAAGGAGTGGATGTTGAGGAAGTAATTCTTCCAAGTATGATTGAGAATCAGCCAG
66 GCAACTTCATGAAGGAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGG
* *
37094090 ATCAT-ACAGATACCACTTCAGAATTT-CCTGTTGTCGAGGCAAGATCTCTGGATGATATACATG
131 ATCATGA-AGATACCACTTC-GAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATA
* * * *
37094153 ATGCTTT-CATAAAAGAACTAGAACCTAATACAACTGAGCTGCCACATTCAGTAGACTTGAGGCA
194 ATGCTTTCCA-AAAAGAACCAGAACCTAAT-CAGCTGAGCTGCCACATTCAGCAGACTTGAGGAA
* *** *
37094217 TGTATCATCAGAAGTAGAGCAGCGCAATGTGGTTTCATCTAATGAGATTGAAGTTGGCAAAGCAG
257 TGGATCATCAGAAGTAGAGCAGCATGATGTGGTTTC-TCTAA-GAGATTGAAGTTGGCAATGCAG
* *
37094282 TCTCTGGCTTTGAAGAACATATTCAGAATGTTGCTGCTGGTGAACCAAAAAAAGAATATGAAGAA
320 TCTCTGGCTTTGAAGAAAATATTCAGAA--TTGCTGCTGGTGAACCAAAAAATGAA-ATGAAGAA
*
37094347 ATAGAAGAATTGAAGATG
382 ATAGAAGAAATGAAGATG
* *
37094365 GAGACCAATGCGGAGCTGCCTGTTCTGGATGCAAGATCAGTTGAAGATC-TTGATTTGGCTTTTA
1 GAGACCAATGCGGAGCTGCCTGTTCTTGAAGCAAGATCAGTTGAAGA-CATTGATTTGGCTTTTA
* * * * * *
37094429 AGCAACTTCATGAAGGTGTAGACGTTGAGGAAGTAGTTCTTACAAGCATGATTGAGAATCAGCTG
65 AGCAACTTCATGAAGGAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCG
* * ** *
37094494 GATCATGAAGATTCCACTTCAAAGGTACCTGTTGTTGAGGCAAGATCTCTGGAGGATATACATAA
130 GATCATGAAGATACCACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAA
** * * * * * *
37094559 TGCTTTCCAAAAAGGTCCAGAACCTGATCCAGCCGAGCTGCCGCTTTCTGCAGACTTGAGAAATG
195 TGCTTTCCAAAAAGAACCAGAACCTAAT-CAGCTGAGCTGCCACATTCAGCAGACTTGAGGAATG
* * * * * * *
37094624 GATCATCAAAAATGGAGCAGCATGATCTGGCTTCTAATAAAGAGATTGAAGTTGGTC-ATGCCGT
259 GATCATCAGAAGTAGAGCAGCATGATGTGGTTTCT-CT-AAGAGATTGAAGTTGG-CAATGCAGT
* * * * *
37094688 CTCTGGCATTCAAGAAAATATTCAGAA-TGCTGCAGGTGAACCAAAAAATGACCATGAAGAAACA
321 CTCTGGCTTTGAAGAAAATATTCAGAATTGCTGCTGGTGAACCAAAAAATGA-AATGAAGAAATA
*
37094752 GAGGAAATGAAGATG
385 GAAGAAATGAAGATG
* * * *
37094767 GAGACCAATGCAGAGCTGCCAGTTCTTGAAGCAAGATCACTGGAAGACATTGATTTGGCTTTTAA
1 GAGACCAATGCGGAGCTGCCTGTTCTTGAAGCAAGATCAGTTGAAGACATTGATTTGGCTTTTAA
* *
37094832 GCAACTTCATGAAGGAGTTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCAGG
66 GCAACTTCATGAAGGAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGG
* * * * * * * * *
37094897 GTGATGCAGATACCAATTCGGATTTACCAGTTGTTGAGGCAAGATCTCTGGAGGATATACAGAGT
131 ATCATGAAGATACCACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAT
* * ** * * *
37094962 GCTTTTCAACAAGGCCCCGAATCTAATCTAGCTGAGGTGCCACATTC
196 GCTTTCCAAAAAGAACCAGAACCTAATC-AGCTGAGCTGCCACATTC
37095009 GTCAGGAGTA
Statistics
Matches: 887, Mismatches: 136, Indels: 49
0.83 0.13 0.05
Matches are distributed among these distances:
398 8 0.01
399 282 0.32
400 9 0.01
401 2 0.00
402 270 0.30
403 1 0.00
404 5 0.01
405 304 0.34
406 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (399 bp):
GAGACCAATGCGGAGCTGCCTGTTCTTGAAGCAAGATCAGTTGAAGACATTGATTTGGCTTTTAA
GCAACTTCATGAAGGAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGG
ATCATGAAGATACCACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAAT
GCTTTCCAAAAAGAACCAGAACCTAATCAGCTGAGCTGCCACATTCAGCAGACTTGAGGAATGGA
TCATCAGAAGTAGAGCAGCATGATGTGGTTTCTCTAAGAGATTGAAGTTGGCAATGCAGTCTCTG
GCTTTGAAGAAAATATTCAGAATTGCTGCTGGTGAACCAAAAAATGAAATGAAGAAATAGAAGAA
ATGAAGATG
Found at i:37107522 original size:32 final size:32
Alignment explanation
Indices: 37107477--37107546 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
37107467 GATTCATATT
* *
37107477 CTAGATTAGGTTTATCCCTGTAATATAGAATA
1 CTAGATTAAGTTTATCCCTATAATATAGAATA
37107509 CTAGATTAAGTTTATCCCTATAATATAGAATA
1 CTAGATTAAGTTTATCCCTATAATATAGAATA
*
37107541 ATAGAT
1 CTAGAT
37107547 AATGAGACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (32 bp):
CTAGATTAAGTTTATCCCTATAATATAGAATA
Found at i:37109727 original size:22 final size:22
Alignment explanation
Indices: 37109702--37109746 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
37109692 AATTTAAATT
*
37109702 TTATATTTATTAAATAATCTAA
1 TTATATTTAGTAAATAATCTAA
* *
37109724 TTATATTTAGTAATTAATTTAA
1 TTATATTTAGTAAATAATCTAA
37109746 T
1 T
37109747 ATAATATATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATATTTAGTAAATAATCTAA
Found at i:37115627 original size:29 final size:29
Alignment explanation
Indices: 37115580--37115636 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
37115570 TCATCCAACT
* * *
37115580 ATAAAAGATTTACATTTTAGGTAGCCAAA
1 ATAAAAGATTTACAATTTAAGTACCCAAA
* *
37115609 ATAAAAGGTTTGCAATTTAAGTACCCAA
1 ATAAAAGATTTACAATTTAAGTACCCAA
37115637 GTTACATAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (29 bp):
ATAAAAGATTTACAATTTAAGTACCCAAA
Found at i:37116747 original size:22 final size:22
Alignment explanation
Indices: 37116705--37116747 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37116695 TGTCAACAAT
*
37116705 TTATAATTTTTTAAATTTATTA
1 TTATAATTTTTTAAATATATTA
*
37116727 TTATACTTTTTTGAAA-ATATT
1 TTATAATTTTTT-AAATATATT
37116748 TATGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATAATTTTTTAAATATATTA
Found at i:37126421 original size:22 final size:24
Alignment explanation
Indices: 37126391--37126442 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
37126381 ATTATGTGTA
37126391 TTTTATTTTAAT-TTTATTTAGAG
1 TTTTATTTTAATATTTATTTAGAG
37126414 TTTT-TTTTAATAAAATTTATTTAGAG
1 TTTTATTTTAAT---ATTTATTTAGAG
37126440 TTT
1 TTT
37126443 AAATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.28
23 4 0.16
26 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (24 bp):
TTTTATTTTAATATTTATTTAGAG
Found at i:37127653 original size:16 final size:17
Alignment explanation
Indices: 37127634--37127667 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
37127624 ATTTTTGGAA
37127634 AAAAATTAT-AAATATG
1 AAAAATTATAAAATATG
37127650 AAAAATTATAAAATATG
1 AAAAATTATAAAATATG
37127667 A
1 A
37127668 TATTTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAATATG
Found at i:37131199 original size:10 final size:9
Alignment explanation
Indices: 37131176--37131209 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
37131166 ATTTTTTTTC
*
37131176 AAAAATATA
1 AAAAAAATA
37131185 AAAAAAATA
1 AAAAAAATA
37131194 ACAAAAAATA
1 A-AAAAAATA
37131204 AAAAAA
1 AAAAAA
37131210 TTGTAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:37131838 original size:16 final size:16
Alignment explanation
Indices: 37131779--37131838 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
37131769 TTTATATTCT
*
37131779 TTTTGTAATTTTATAC
1 TTTTATAATTTTATAC
* * *
37131795 TTTTATATTTTTTCTAT
1 TTTTATA-ATTTTATAC
37131812 TTTTAATAATTTTAATA-
1 TTTT-ATAATTTT-ATAC
37131829 TTTTATAATT
1 TTTTATAATT
37131839 AAAGAAGTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 12 0.34
17 18 0.51
18 5 0.14
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTATAATTTTATAC
Found at i:37138978 original size:28 final size:27
Alignment explanation
Indices: 37138917--37138978 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
37138907 CTAAATTATG
* * *
37138917 AATAAAATTTATTTTAATTATTTAATT
1 AATAAAATTTAATTTAATTATTAAAAT
*
37138944 AAAAAAATTATAATTTAATTATTAAAAT
1 AATAAAATT-TAATTTAATTATTAAAAT
*
37138972 ATTAAAA
1 AATAAAA
37138979 AGCTTTCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AATAAAATTTAATTTAATTATTAAAAT
Found at i:37139158 original size:37 final size:37
Alignment explanation
Indices: 37139111--37139181 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
37139101 AAAAAGTAAA
37139111 TAAAATTAACTTAAACATGTTTTATTTGTTATTTAAG
1 TAAAATTAACTTAAACATGTTTTATTTGTTATTTAAG
37139148 TAAAATTAACTTAAACATGTTTTATTTGTTATTT
1 TAAAATTAACTTAAACATGTTTTATTTGTTATTT
37139182 TAGTTATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.51
Consensus pattern (37 bp):
TAAAATTAACTTAAACATGTTTTATTTGTTATTTAAG
Found at i:37140722 original size:23 final size:23
Alignment explanation
Indices: 37140696--37140741 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37140686 AAGCCCGTCG
37140696 GGCTACAATTTAAAGCTTTTAGT
1 GGCTACAATTTAAAGCTTTTAGT
37140719 GGCTACAATTTAAAGCTTTTAGT
1 GGCTACAATTTAAAGCTTTTAGT
37140742 CTTTCACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (23 bp):
GGCTACAATTTAAAGCTTTTAGT
Found at i:37142592 original size:31 final size:32
Alignment explanation
Indices: 37142554--37142640 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 32
37142544 ATATTATTAC
* * *
37142554 TAAGTTTGTGACGAATACCATAGATGATAGA-
1 TAAGTTTGTGACTAATACCATACATGATACAT
* *
37142585 TAAGTTTGAGACTAATACCGTACATGATACAT
1 TAAGTTTGTGACTAATACCATACATGATACAT
*
37142617 TCAAGTTTGTGACTCATACCATAC
1 T-AAGTTTGTGACTAATACCATAC
37142641 CATACATGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 26 0.57
32 1 0.02
33 19 0.41
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (32 bp):
TAAGTTTGTGACTAATACCATACATGATACAT
Found at i:37142926 original size:27 final size:25
Alignment explanation
Indices: 37142896--37142969 Score: 60
Period size: 26 Copynumber: 2.8 Consensus size: 25
37142886 AATCATAAAG
37142896 AATATAAAAAATTATAAAAAAATATTA
1 AATATAAAAAATTATAAAAAAATA--A
* * * *
37142923 AATA-ATAAATTTTTTAAAAAATAA
1 AATATAAAAAATTATAAAAAAATAA
37142947 AATTGATATAAAAATTATAAAAA
1 AA-T-ATA-AAAAATTATAAAAA
37142970 CTTATAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 16 0.46
27 5 0.14
28 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (25 bp):
AATATAAAAAATTATAAAAAAATAA
Found at i:37142974 original size:10 final size:9
Alignment explanation
Indices: 37142874--37143105 Score: 71
Period size: 9 Copynumber: 24.7 Consensus size: 9
37142864 TATTTTCCAT
37142874 AAAATTACTA
1 AAAATTA-TA
*
37142884 AAAATCATA
1 AAAATTATA
37142893 AAGAA-TATAA
1 AA-AATTAT-A
37142903 AAAATTATA
1 AAAATTATA
*
37142912 AAAA-AATA
1 AAAATTATA
* *
37142920 TTAAATAATA
1 -AAAATTATA
** *
37142930 AATTTTTTA
1 AAAATTATA
37142939 AAAA--ATA
1 AAAATTATA
*
37142946 AAATTGATATA
1 AAAAT--TATA
37142957 AAAATTATA
1 AAAATTATA
37142966 AAAACTTATA
1 AAAA-TTATA
*
37142976 AATATTATA
1 AAAATTATA
*
37142985 GAAA-TATA
1 AAAATTATA
* *
37142993 AAGATTCTA
1 AAAATTATA
37143002 ATAAATTATA
1 A-AAATTATA
* ** *
37143012 TATTTTTTA
1 AAAATTATA
37143021 TAAAATTAATA
1 -AAAATT-ATA
*
37143032 AAAGATATTTA
1 AAA-AT-TATA
*
37143043 CAATATT-TA
1 -AAAATTATA
*
37143052 AAATTTTATA
1 AAA-ATTATA
*
37143062 AAAATTCTTA
1 AAAATT-ATA
37143072 AAAACTTATA
1 AAAA-TTATA
*
37143082 AAAATCATA
1 AAAATTATA
* *
37143091 AAAAATATT
1 AAAATTATA
37143100 AAAATT
1 AAAATT
37143106 GATATAAATA
Statistics
Matches: 159, Mismatches: 42, Indels: 43
0.65 0.17 0.18
Matches are distributed among these distances:
7 5 0.03
8 11 0.07
9 67 0.42
10 56 0.35
11 17 0.11
12 3 0.02
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:37142992 original size:17 final size:17
Alignment explanation
Indices: 37142872--37142994 Score: 52
Period size: 19 Copynumber: 6.8 Consensus size: 17
37142862 AATATTTTCC
* *
37142872 ATAAAATTACTAAAAATC
1 ATAAAAATA-TAAAAATT
37142890 ATAAAGAATATAAAAAATT
1 ATAAA-AATAT-AAAAATT
* * *
37142909 ATAAAAAAATATTAAATA
1 ATAAAAATATA-AAAATT
** *
37142927 ATAAATTTTTTAAAAA--
1 ATAAA-AATATAAAAATT
37142943 ATAAAATTGATATAAAAATT
1 ATAAAA---ATATAAAAATT
*
37142963 ATAAAAACTTATAAATATT
1 ATAAAAA--TATAAAAATT
*
37142982 ATAGAAATATAAA
1 ATAAAAATATAAA
37142995 GATTCTAATA
Statistics
Matches: 79, Mismatches: 15, Indels: 23
0.68 0.13 0.20
Matches are distributed among these distances:
16 5 0.06
17 8 0.10
18 29 0.37
19 31 0.39
20 6 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAAAAATATAAAAATT
Found at i:37143094 original size:20 final size:20
Alignment explanation
Indices: 37143057--37143095 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37143047 ATTTAAAATT
*
37143057 TTATAAAAATTCTTAAAAAC
1 TTATAAAAATTCTAAAAAAC
37143077 TTATAAAAA-TCATAAAAAA
1 TTATAAAAATTC-TAAAAAA
37143096 TATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
TTATAAAAATTCTAAAAAAC
Found at i:37144104 original size:22 final size:22
Alignment explanation
Indices: 37144079--37144121 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37144069 TTATATAAAA
37144079 TGGTAT-TTAATATGTTATTTTT
1 TGGTATCTTAATAT-TTATTTTT
*
37144101 TGGTATCTTTATATTTATTTT
1 TGGTATCTTAATATTTATTTT
37144122 ATCATCTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.65
Consensus pattern (22 bp):
TGGTATCTTAATATTTATTTTT
Found at i:37148090 original size:21 final size:22
Alignment explanation
Indices: 37148049--37148090 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37148039 TAAATTGATC
* *
37148049 ATTCTATTAAAAATTTTATCCA
1 ATTCTATTAAAAATCTGATCCA
37148071 ATTCTATTAAAAA-CTGATCC
1 ATTCTATTAAAAATCTGATCC
37148091 CTAAGTGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTCTATTAAAAATCTGATCCA
Found at i:37151573 original size:12 final size:12
Alignment explanation
Indices: 37151546--37151583 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37151536 TTAGCTTTAG
37151546 TTTCTCTAAG-T
1 TTTCTCTAAGTT
*
37151557 TTTCTCTTAGTT
1 TTTCTCTAAGTT
*
37151569 TTTCTGTAAGTT
1 TTTCTCTAAGTT
37151581 TTT
1 TTT
37151584 TAAGGTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.13, C:0.13, G:0.11, T:0.63
Consensus pattern (12 bp):
TTTCTCTAAGTT
Found at i:37155564 original size:23 final size:23
Alignment explanation
Indices: 37155537--37155631 Score: 70
Period size: 23 Copynumber: 4.0 Consensus size: 23
37155527 AGTGATTCCA
37155537 TTTAGTTTTATGTTTTATTTATT
1 TTTAGTTTTATGTTTTATTTATT
37155560 TTTAGTTTTA-GTTGTGT-TTTATT
1 TTTAGTTTTATGTT-T-TATTTATT
* *
37155583 TTTATTTGTTTTGATTTTATTT-TT
1 TTTAGTT-TTATG-TTTTATTTATT
** * *
37155607 TGAACTTATATGTTTTATTTTATT
1 TTTAGTTTTATGTTTTA-TTTATT
37155631 T
1 T
37155632 CATTATGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
22 8 0.14
23 29 0.51
24 13 0.23
25 5 0.09
26 2 0.04
ACGTcount: A:0.17, C:0.01, G:0.11, T:0.72
Consensus pattern (23 bp):
TTTAGTTTTATGTTTTATTTATT
Found at i:37155567 original size:16 final size:16
Alignment explanation
Indices: 37155536--37155604 Score: 59
Period size: 17 Copynumber: 4.2 Consensus size: 16
37155526 CAGTGATTCC
*
37155536 ATTTAGTTTTATGTTTT
1 ATTTATTTTTA-GTTTT
37155553 ATTTATTTTTAGTTTT
1 ATTTATTTTTAGTTTT
* * *
37155569 AGTTGTGTTTTATTTTT
1 ATTTAT-TTTTAGTTTT
* *
37155586 ATTTGTTTTGA-TTTT
1 ATTTATTTTTAGTTTT
37155601 ATTT
1 ATTT
37155605 TTTGAACTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 8 0.18
16 13 0.29
17 24 0.53
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (16 bp):
ATTTATTTTTAGTTTT
Found at i:37155677 original size:17 final size:18
Alignment explanation
Indices: 37155645--37155678 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37155635 TATGCACTTT
37155645 ACTGTTATTGTTTTATTG
1 ACTGTTATTGTTTTATTG
*
37155663 ACTGTT-TTTTTTTATT
1 ACTGTTATTGTTTTATT
37155679 TTTTTATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (18 bp):
ACTGTTATTGTTTTATTG
Found at i:37163681 original size:16 final size:14
Alignment explanation
Indices: 37163652--37163685 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
37163642 AAACTTGGGG
37163652 TTTTTTTTTTTTGC
1 TTTTTTTTTTTTGC
37163666 TTTTTGTTTTTGTTGC
1 TTTTT-TTTTT-TTGC
37163682 TTTT
1 TTTT
37163686 ATTTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 5 0.28
16 8 0.44
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTTTGC
Found at i:37163698 original size:13 final size:12
Alignment explanation
Indices: 37163654--37163701 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
37163644 ACTTGGGGTT
37163654 TTTTTTTTTTGC
1 TTTTTTTTTTGC
37163666 TTTTTGTTTTTG-
1 TTTTT-TTTTTGC
*
37163678 TTGCTTTTATTTGC
1 TT--TTTTTTTTGC
37163692 TTTTTTTTTT
1 TTTTTTTTTT
37163702 CATGTAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 14 0.47
13 11 0.37
14 5 0.17
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTTGC
Found at i:37164785 original size:30 final size:30
Alignment explanation
Indices: 37164722--37164991 Score: 252
Period size: 30 Copynumber: 9.2 Consensus size: 30
37164712 ATTTGGTTTC
* * *
37164722 AAAATGTAATTTTAGAAAAGTTT--GGGAT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
* *
37164750 AAAATGTAAGTTTGGGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
*
37164780 AAAATGTGATTTTTGGAAAGTTTAA-GGTT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
*
37164809 TAAATGTAA-TTTTGGAAAAGTTT-AGGGTT
1 AAAATGTAATTTTTGG-AAAGTTTAAGGGTT
* *
37164838 CAAAATGTAATTTTT-TAAAGTTT-GGGGTTT
1 -AAAATGTAATTTTTGGAAAGTTTAAGGG-TT
*
37164868 ATAATGTAATTTCTT-GAAAGTTT-AGGGTT
1 AAAATGTAATTT-TTGGAAAGTTTAAGGGTT
* * * *
37164897 AAAATGTGATTTTAGGAAAATTTAAAGGTT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
* *
37164927 AAAATGTAATTTTTAGAAAGTTTAAGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
* * * * *
37164957 ATAATTTAATTTTAGAAAAATTTAAGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
37164987 AAAAT
1 AAAAT
37164992 ATGATTTTAA
Statistics
Matches: 198, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
28 28 0.14
29 62 0.31
30 104 0.53
31 4 0.02
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.40
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTAAGGGTT
Found at i:37164843 original size:59 final size:57
Alignment explanation
Indices: 37164722--37164991 Score: 247
Period size: 59 Copynumber: 4.6 Consensus size: 57
37164712 ATTTGGTTTC
* * * *
37164722 AAAATGTAATTTTAGAAAAGTTT-GGGATAAAATGTAAGTTTGGGAAAGTTTAAGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAAGGTTAAAATGTAA-TTTTGGAAAGTTT-AGGGTT
* * *
37164780 AAAATGTGATTTTTGGAAAGTTTAAGGTTTAAATGTAATTTTGGAAAAGTTTAGGGTT
1 AAAATGTAATTTTAGGAAAGTTTAAGGTTAAAATGTAATTTTGG-AAAGTTTAGGGTT
** ** * *
37164838 CAAAATGTAATTTT-TTAAAGTTTGGGGTTTATAATGTAATTTCTTGAAAGTTTAGGGTT
1 -AAAATGTAATTTTAGGAAAGTTTAAGG-TTAAAATGTAATTT-TGGAAAGTTTAGGGTT
* * * *
37164897 AAAATGTGATTTTAGGAAAATTTAAAGGTTAAAATGTAATTTTTAGAAAGTTTAAGGGTC
1 AAAATGTAATTTTAGGAAAGTTT-AAGGTTAAAATGTAA-TTTTGGAAAGTTT-AGGGTT
* * * *
37164957 ATAATTTAATTTTAGAAAAATTTAAGGGTTAAAAT
1 AAAATGTAATTTTAGGAAAGTTTAA-GGTTAAAAT
37164992 ATGATTTTAA
Statistics
Matches: 174, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
58 52 0.30
59 82 0.47
60 40 0.23
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.40
Consensus pattern (57 bp):
AAAATGTAATTTTAGGAAAGTTTAAGGTTAAAATGTAATTTTGGAAAGTTTAGGGTT
Found at i:37175868 original size:15 final size:15
Alignment explanation
Indices: 37175816--37175868 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 15
37175806 ATAAGAGAAT
37175816 AATAAAATATTGAAAA
1 AATAAAATATT-AAAA
37175832 AAT-AAATATTAAAA
1 AATAAAATATTAAAA
*
37175846 AA-AGAATA-TAATAA
1 AATAAAATATTAA-AA
37175860 AATAAAATA
1 AATAAAATA
37175869 CATGATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 3 0.09
14 14 0.44
15 12 0.38
16 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (15 bp):
AATAAAATATTAAAA
Found at i:37175903 original size:24 final size:25
Alignment explanation
Indices: 37175859--37175908 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
37175849 GAATATAATA
37175859 AAATAAAATACATGATAATTT-TTT
1 AAATAAAATACATGATAATTTATTT
* *
37175883 AAATAAATTATAT-ATATATTTATTT
1 AAATAAAATACATGATA-ATTTATTT
37175908 A
1 A
37175909 TTGTACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 3 0.14
24 15 0.68
25 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATAAAATACATGATAATTTATTT
Found at i:37178446 original size:3 final size:3
Alignment explanation
Indices: 37178438--37178478 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37178428 ATAAATAGCT
37178438 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37178479 TATCCACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37182354 original size:16 final size:18
Alignment explanation
Indices: 37182315--37182348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37182305 TAAATTTATA
37182315 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
37182332 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
37182349 AATTTAGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:37184635 original size:6 final size:6
Alignment explanation
Indices: 37184616--37184669 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
37184606 ATATCCATCG
* **
37184616 TAATCA TAACCA TAATCA TAATCA TTGTCCTCA TAATCA TAATCA TAATCA
1 TAATCA TAATCA TAATCA TAATCA ---TAATCA TAATCA TAATCA TAATCA
37184667 TAA
1 TAA
37184670 ACTTGCTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 35 0.90
9 4 0.10
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (6 bp):
TAATCA
Found at i:37188528 original size:28 final size:28
Alignment explanation
Indices: 37188488--37188543 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
37188478 GAAGATAGGA
37188488 AAGCCTAATAGGTACATGGGTGCTCACC
1 AAGCCTAATAGGTACATGGGTGCTCACC
37188516 AAGCCTAATAGGTACATGGGTGCTCACC
1 AAGCCTAATAGGTACATGGGTGCTCACC
37188544 TCTTCATGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (28 bp):
AAGCCTAATAGGTACATGGGTGCTCACC
Found at i:37188984 original size:3 final size:3
Alignment explanation
Indices: 37188976--37189005 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37188966 TGTTACAATT
37188976 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
37189006 TAGCTTTTCT
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:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:37191475 original size:191 final size:191
Alignment explanation
Indices: 37191151--37191528 Score: 686
Period size: 191 Copynumber: 2.0 Consensus size: 191
37191141 GGGACTCACA
* * *
37191151 AACACATCTTTTTACCCAATATCAAGCCCTAAAATACAACTCTTACCCTCAGTTCCTGGTGCAGC
1 AACACATCTTTTTACCCAATATCAAGCCCTAAAATACAACTCTCACCCTCAGTTCCAGGTGAAGC
37191216 AATCCCAGCCAACAGAAAATCTTTATGAATTACAATATTACCCTCCTTTTCCTTAAGCTTAATTC
66 AATCCCAGCCAACAGAAAATCTTTATGAATTACAATATTACCCTCCTTTTCCTTAAGCTTAATTC
37191281 ACACAAATTCCATGACCAAGAAGCATATATAAGGACATGATAATCTAAAGGCATAAAATAC
131 ACACAAATTCCATGACCAAGAAGCATATATAAGGACATGATAATCTAAAGGCATAAAATAC
*
37191342 AACACATCTTTTTACCCAATATCAAGCCCTAAAATACAACTCTCACCTTCAGTTCCAGGTGTAAG
1 AACACATCTTTTTACCCAATATCAAGCCCTAAAATACAACTCTCACCCTCAGTTCCAGGTG-AAG
*
37191407 CAATCCCAGCCAACAGAAAATTTTTATGAATTACAATATTACCC-CCTTTTCCTTAAGCTTAATT
65 CAATCCCAGCCAACAGAAAATCTTTATGAATTACAATATTACCCTCCTTTTCCTTAAGCTTAATT
*
37191471 CACACAAATTCCATGACCAAGAAGTATATATAAGGACATGATAATCTAAAGGCATAAA
130 CACACAAATTCCATGACCAAGAAGCATATATAAGGACATGATAATCTAAAGGCATAAA
37191529 TCCATCCCAA
Statistics
Matches: 180, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
191 135 0.75
192 45 0.25
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (191 bp):
AACACATCTTTTTACCCAATATCAAGCCCTAAAATACAACTCTCACCCTCAGTTCCAGGTGAAGC
AATCCCAGCCAACAGAAAATCTTTATGAATTACAATATTACCCTCCTTTTCCTTAAGCTTAATTC
ACACAAATTCCATGACCAAGAAGCATATATAAGGACATGATAATCTAAAGGCATAAAATAC
Found at i:37201843 original size:15 final size:15
Alignment explanation
Indices: 37201823--37201872 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
37201813 CTTTTAATAA
37201823 ATAATAATAATTATT
1 ATAATAATAATTATT
37201838 ATAATAATAA-TATT
1 ATAATAATAATTATT
*
37201852 AATAAT-ATTATTATT
1 -ATAATAATAATTATT
37201867 A-AATAA
1 ATAATAA
37201873 AAAACTCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.10
14 9 0.29
15 19 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAATAATTATT
Found at i:37203068 original size:59 final size:59
Alignment explanation
Indices: 37202977--37203327 Score: 526
Period size: 59 Copynumber: 6.0 Consensus size: 59
37202967 ATAGGTCCTT
* * * *
37202977 AAACTTTTCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCCT
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* *
37203036 AAACTTTCTAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCC
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * *
37203095 AAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTATCATTTTACCCCC
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
** *
37203154 AAACTTTCCAAAATCCCATTTTTTAACCTTGATTTCACCAAAAATTACCATTTT-CTCCC
1 AAACTTTCCAAAATCCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* * *
37203213 GAACTTTCCAAAATCTCATTTTT-ACCCCGATTTCATCAAAAATTACCATTTTACCCCC
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
* *
37203271 AAACTTTCCAAAATCTCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCC
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
37203328 TCGAAAGTCA
Statistics
Matches: 265, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
57 26 0.10
58 31 0.12
59 176 0.66
60 32 0.12
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (59 bp):
AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
Found at i:37203272 original size:176 final size:177
Alignment explanation
Indices: 37202977--37203327 Score: 530
Period size: 176 Copynumber: 2.0 Consensus size: 177
37202967 ATAGGTCCTT
* * *
37202977 AAACTTTTCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTT
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTT
* * *
37203042 TCTAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCTAAA
66 TCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAA
*
37203107 AT-TCCATTTTTAACCCCGATTTCACCAAAAATTATCATTTTACCCCC
131 ATCT-CATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
** *
37203154 AAACTTTCCAAAATCCCATTTTTTAACCTTGATTTCACCAAAAATTACCATTTT-CTCCC-GAAC
1 AAACTTTCCAAAATCCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC-CCCTAAAC
* *
37203217 TTTCCAAAATCTCATTTTT-ACCCCGATTTCATCAAAAATTACCATTTTACCCCCAAACTTTCCA
64 TTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCA
*
37203281 AAATCTCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCC
129 AAATCTCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
37203328 TCGAAAGTCA
Statistics
Matches: 158, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
176 85 0.54
177 38 0.24
178 35 0.22
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (177 bp):
AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAACTT
TCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAA
ATCTCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
Found at i:37210415 original size:10 final size:10
Alignment explanation
Indices: 37210400--37210438 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
37210390 CATTTGGTGA
*
37210400 AAATATTATT
1 AAATATTTTT
37210410 AAATATTTTT
1 AAATATTTTT
37210420 AAAATATTTTT
1 -AAATATTTTT
*
37210431 AAAGATTT
1 AAATATTT
37210439 GGAATACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
AAATATTTTT
Found at i:37210423 original size:21 final size:21
Alignment explanation
Indices: 37210399--37210438 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37210389 TCATTTGGTG
*
37210399 AAAATATTATTAAATATTTTT
1 AAAATATTATTAAAGATTTTT
*
37210420 AAAATATTTTTAAAGATTT
1 AAAATATTATTAAAGATTT
37210439 GGAATACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
AAAATATTATTAAAGATTTTT
Found at i:37210426 original size:11 final size:11
Alignment explanation
Indices: 37210399--37210433 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
37210389 TCATTTGGTG
*
37210399 AAAATATTATT
1 AAAATATTTTT
37210410 -AAATATTTTT
1 AAAATATTTTT
37210420 AAAATATTTTT
1 AAAATATTTTT
37210431 AAA
1 AAA
37210434 GATTTGGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:37221050 original size:43 final size:43
Alignment explanation
Indices: 37220989--37221083 Score: 190
Period size: 43 Copynumber: 2.2 Consensus size: 43
37220979 CAAGAATTTT
37220989 GTCGAAGGACTGAGCCATCTCTTTGATTTGCCTCACAATTGTG
1 GTCGAAGGACTGAGCCATCTCTTTGATTTGCCTCACAATTGTG
37221032 GTCGAAGGACTGAGCCATCTCTTTGATTTGCCTCACAATTGTG
1 GTCGAAGGACTGAGCCATCTCTTTGATTTGCCTCACAATTGTG
37221075 GTCGAAGGA
1 GTCGAAGGA
37221084 GCTCCTTGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (43 bp):
GTCGAAGGACTGAGCCATCTCTTTGATTTGCCTCACAATTGTG
Found at i:37223342 original size:17 final size:19
Alignment explanation
Indices: 37223320--37223354 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
37223310 TATCATGAAA
37223320 ATAAAAA-TAA-AAATAAT
1 ATAAAAATTAACAAATAAT
37223337 ATAAAAATTAACAAATAA
1 ATAAAAATTAACAAATAA
37223355 AAAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAATTAACAAATAAT
Found at i:37223353 original size:25 final size:25
Alignment explanation
Indices: 37223317--37223374 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
37223307 ATTTATCATG
37223317 AAAA-TAA-AAAT-AAAAATAATATA
1 AAAATTAACAAATAAAAAAT-ATATA
*
37223340 AAAATTAACAAATAAAAAATTTATA
1 AAAATTAACAAATAAAAAATATATA
37223365 AAACATTAAC
1 AAA-ATTAAC
37223375 CAATTATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.13
24 3 0.10
25 11 0.37
26 12 0.40
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (25 bp):
AAAATTAACAAATAAAAAATATATA
Found at i:37223401 original size:2 final size:2
Alignment explanation
Indices: 37223394--37223426 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37223384 ATAATACATA
37223394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37223427 AATACCTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37247384 original size:16 final size:18
Alignment explanation
Indices: 37247365--37247400 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
37247355 ATATTTTATG
37247365 TTTGTTT-AAA-TTTAAT
1 TTTGTTTAAAATTTTAAT
37247381 TTTGTTTAAAATTTTAAT
1 TTTGTTTAAAATTTTAAT
37247399 TT
1 TT
37247401 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTGTTTAAAATTTTAAT
Found at i:37247835 original size:41 final size:41
Alignment explanation
Indices: 37247744--37247856 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
37247734 TTTTCAGACT
* *
37247744 TAATATTTTTTGTCCAAACCCTTTCAAATTTCGAGCAGGCC
1 TAATATTTTTTGTTCAAACCCTTTCAAATTTCGAGCAGGAC
* * * * * **
37247785 TATTGTTTTTTTTTCAAACCCTTTCATATTTCGGGTGGGAC
1 TAATATTTTTTGTTCAAACCCTTTCAAATTTCGAGCAGGAC
*
37247826 TAATA-TTTTTGTTCAAACCCTTTTAAATTTC
1 TAATATTTTTTGTTCAAACCCTTTCAAATTTC
37247857 AGGCGAACCT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
40 23 0.40
41 35 0.60
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (41 bp):
TAATATTTTTTGTTCAAACCCTTTCAAATTTCGAGCAGGAC
Found at i:37252431 original size:17 final size:18
Alignment explanation
Indices: 37252383--37252431 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
37252373 GTATATAAAA
*
37252383 ATATTTATAAATATTATT
1 ATATTTAAAAATATTATT
*
37252401 ATTTTTTAAAAAATATTATT
1 A-TATTT-AAAAATATTATT
37252421 A-ATTTAAAAAT
1 ATATTTAAAAAT
37252432 GTAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.23
18 4 0.15
19 4 0.15
20 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTAAAAATATTATT
Found at i:37252736 original size:25 final size:25
Alignment explanation
Indices: 37252673--37252729 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
37252663 TTTTATTTTC
37252673 TAAAAATTGAAAAATATATTTTAAAAA
1 TAAAAA-T-AAAAATATATTTTAAAAA
*
37252700 TAAAAATAAAAAT-TAGTTTTAATAA
1 TAAAAATAAAAATATA-TTTTAAAAA
37252725 TAAAA
1 TAAAA
37252730 CAGAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 19 0.68
26 1 0.04
27 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAAATAAAAATATATTTTAAAAA
Found at i:37252744 original size:26 final size:24
Alignment explanation
Indices: 37252681--37252744 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
37252671 TCTAAAAATT
*
37252681 GAAAAATATATTTTAAAAATAAAAA
1 GAAAAA-ATGTTTTAAAAATAAAAA
* * *
37252706 TAAAAATTAGTTTTAATAATAAAACA
1 GAAAAAAT-GTTTTAAAAATAAAA-A
37252732 GAAAAAGATGTTT
1 GAAAAA-ATGTTT
37252745 GGTATCTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
24 1 0.03
25 18 0.60
26 10 0.33
27 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (24 bp):
GAAAAAATGTTTTAAAAATAAAAA
Found at i:37272626 original size:85 final size:84
Alignment explanation
Indices: 37272514--37272713 Score: 228
Period size: 86 Copynumber: 2.3 Consensus size: 84
37272504 AAGTCACTGT
* *
37272514 ATTTTTTTCACATAATTAGGTACTTGAACTATT-AAAATGCATAAAAAAG-CCTTCAATT-TAAA
1 ATTTTTTTTACATAATTAGGTACTTGAACT-TTCAAAATGCATAAAAAAGACCCTCAATTGT-AA
37272576 AAAAAAACAATTAAGCCCCTA
64 AAAAAAACAATTAAGCCCCTA
* * * *
37272597 ATTTTTTTTACATTTAATTGGGTATTTGAACTTTCAAAATGCATCAAAAAGACCCTCAATTGTTA
1 ATTTTTTTTACA--TAATTAGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAATTGTAA
* *
37272662 AAAAAAACAATTAAGTCCCTG
64 AAAAAAACAATTAAGCCCCTA
*
37272683 ATTTTTTTTGCACTCAATT-GGATACTTGAAC
1 ATTTTTTTTACA-T-AATTAGG-TACTTGAAC
37272714 CATCTCTAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
83 11 0.11
84 2 0.02
85 34 0.34
86 51 0.52
87 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (84 bp):
ATTTTTTTTACATAATTAGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAATTGTAAAA
AAAAACAATTAAGCCCCTA
Found at i:37272816 original size:29 final size:30
Alignment explanation
Indices: 37272782--37272838 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
37272772 TAAAAAATTT
*
37272782 ATAAAAATTA-TTAAATTTTAATAAAAACA
1 ATAAAAAATATTTAAATTTTAATAAAAACA
*
37272811 ATAAAAAATATTTAAATTTTATTAAAAA
1 ATAAAAAATATTTAAATTTTAATAAAAA
37272839 TTAGAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
ATAAAAAATATTTAAATTTTAATAAAAACA
Found at i:37273220 original size:41 final size:40
Alignment explanation
Indices: 37273137--37273245 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 40
37273127 TTTTTATGCA
***
37273137 TTTTATA-AT-TTTTTTAAAATTTTTATAAAAGTTTACAAT
1 TTTTATATATATTTTTT-AAATTTTTATAAAAAAATACAAT
*
37273176 TTTTATATATATTTTTTACAATTTTTATAAAAAAAT-CTAT
1 TTTTATATATATTTTTTA-AATTTTTATAAAAAAATACAAT
* *
37273216 TTTT-TA-ATAATTTTTATATTTTTATAAAAA
1 TTTTATATATATTTTTTAAATTTTTATAAAAA
37273246 TTTAATAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
37 13 0.21
38 9 0.15
39 9 0.15
40 10 0.16
41 20 0.33
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (40 bp):
TTTTATATATATTTTTTAAATTTTTATAAAAAAATACAAT
Found at i:37273238 original size:9 final size:9
Alignment explanation
Indices: 37273213--37273283 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
37273203 TAAAAAAATC
37273213 TATTTTTTAA
1 TATTTTTT-A
*
37273223 TAATTTTTA
1 TATTTTTTA
37273232 TATTTTTATA
1 TATTTTT-TA
* ** *
37273242 AAAATTTAA
1 TATTTTTTA
*
37273251 TA-ATTTT-
1 TATTTTTTA
37273258 TATTTTTTA
1 TATTTTTTA
37273267 TATTTTTTA
1 TATTTTTTA
37273276 TATTTTTT
1 TATTTTTT
37273284 TGTCACATGT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
7 2 0.04
8 8 0.16
9 26 0.53
10 13 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TATTTTTTA
Found at i:37273256 original size:20 final size:20
Alignment explanation
Indices: 37273149--37273260 Score: 58
Period size: 19 Copynumber: 5.8 Consensus size: 20
37273139 TTATAATTTT
*
37273149 TTTAA-AATTTTTATAAAAG
1 TTTAATAATTTTTATAAAAA
* **
37273168 TTT-ACAATTTTTATATATATT
1 TTTAATAATTTTTATA-A-AAA
* *
37273189 TTTTACAATTTTTATAAAAA
1 TTTAATAATTTTTATAAAAA
* *
37273209 ---AATCTATTTTT-TAATAA
1 TTTAAT-AATTTTTATAAAAA
*
37273226 TTT-TTATATTTTTATAAAAA
1 TTTAATA-ATTTTTATAAAAA
37273246 TTTAATAATTTTTAT
1 TTTAATAATTTTTAT
37273261 TTTTTATATT
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
17 6 0.09
18 7 0.10
19 20 0.29
20 18 0.26
21 7 0.10
22 12 0.17
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (20 bp):
TTTAATAATTTTTATAAAAA
Found at i:37273896 original size:19 final size:20
Alignment explanation
Indices: 37273858--37273896 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37273848 AGAAATAAGC
*
37273858 CAGAATATTGCAAGAGCAAT
1 CAGAATATAGCAAGAGCAAT
*
37273878 CAGAATATAG-AAGATCAAT
1 CAGAATATAGCAAGAGCAAT
37273897 GGTTAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (20 bp):
CAGAATATAGCAAGAGCAAT
Found at i:37281013 original size:31 final size:31
Alignment explanation
Indices: 37280978--37281038 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
37280968 CCACCAGGCA
*
37280978 AACACTTCATTCTATATCTT-AGCATGCAGTG
1 AACACTTCAATCTATATCTTCA-CATGCAGTG
37281009 AACACTTCAATCTATATCTTCACATGCAGT
1 AACACTTCAATCTATATCTTCACATGCAGT
37281039 TATGGAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (31 bp):
AACACTTCAATCTATATCTTCACATGCAGTG
Found at i:37284389 original size:19 final size:20
Alignment explanation
Indices: 37284367--37284416 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
37284357 TTTTAAATCA
*
37284367 TTTTAATATTTTT-ATATTT
1 TTTTAATATTTTTCATAATT
*
37284386 TTTTAAAATTTTTCATAATT
1 TTTTAATATTTTTCATAATT
*
37284406 TTATAAT-TTTT
1 TTTTAATATTTT
37284417 AAATAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAATATTTTTCATAATT
Found at i:37284422 original size:19 final size:19
Alignment explanation
Indices: 37284345--37284422 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
37284335 TGTTTTATGT
37284345 ATAATTTT-T-ATGTTTTAA
1 ATAATTTTATAAT-TTTTAA
* *
37284363 ATCATTTTA-ATATTTTTAT
1 ATAATTTTATA-ATTTTTAA
** * *
37284382 ATTTTTTTAAAATTTTT-C
1 ATAATTTTATAATTTTTAA
37284400 ATAATTTTATAATTTTTAA
1 ATAATTTTATAATTTTTAA
37284419 ATAA
1 ATAA
37284423 AATTTAATGT
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
18 21 0.46
19 22 0.48
20 3 0.07
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (19 bp):
ATAATTTTATAATTTTTAA
Found at i:37284521 original size:17 final size:17
Alignment explanation
Indices: 37284492--37284537 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
37284482 ATGATTTGAC
37284492 AAATAACATAAATATAAA
1 AAATAA-ATAAATATAAA
37284510 AAATAAATAAATATAAA
1 AAATAAATAAATATAAA
*
37284527 ATA-AAATAAAT
1 AAATAAATAAAT
37284538 TTTTTCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 8 0.30
17 13 0.48
18 6 0.22
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAATAAATATAAA
Found at i:37291596 original size:22 final size:23
Alignment explanation
Indices: 37291569--37291613 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
37291559 TTTTATTATT
* *
37291569 TTATTGATTTATATTTC-ATGCA
1 TTATTGATCTATACTTCAATGCA
37291591 TTATTGATCTATACTTCAATGCA
1 TTATTGATCTATACTTCAATGCA
37291614 AGGTAAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (23 bp):
TTATTGATCTATACTTCAATGCA
Found at i:37293231 original size:17 final size:17
Alignment explanation
Indices: 37293211--37293243 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37293201 ATAAAGGATG
*
37293211 AAAGAGAATAAGGAAAT
1 AAAGAGAAAAAGGAAAT
37293228 AAAGAGAAAAAGGAAA
1 AAAGAGAAAAAGGAAA
37293244 GAGTAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (17 bp):
AAAGAGAAAAAGGAAAT
Found at i:37293252 original size:20 final size:19
Alignment explanation
Indices: 37293211--37293270 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
37293201 ATAAAGGATG
*
37293211 AAAGAGAATAAGG-AAA-T
1 AAAGAGAAAAAGGAAAAGT
37293228 AAAGAGAAAAAGGAAAGAGT
1 AAAGAGAAAAAGGAAA-AGT
*
37293248 AAAGA-AACAATGGAAAAAGT
1 AAAGAGAA-AAAGG-AAAAGT
37293268 AAA
1 AAA
37293271 AGATGAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.33
18 2 0.06
19 3 0.08
20 16 0.44
21 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAGAGAAAAAGGAAAAGT
Found at i:37294138 original size:17 final size:18
Alignment explanation
Indices: 37294111--37294146 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37294101 ATTTATAAAA
37294111 AAAAGTTATAAATTTTTT
1 AAAAGTTATAAATTTTTT
*
37294129 AAAA-TTATAACTTTTTT
1 AAAAGTTATAAATTTTTT
37294146 A
1 A
37294147 TTAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAAGTTATAAATTTTTT
Found at i:37300529 original size:57 final size:57
Alignment explanation
Indices: 37300406--37300569 Score: 247
Period size: 57 Copynumber: 2.8 Consensus size: 57
37300396 GAAGAAGAGA
* *
37300406 AGCACAAGGGAGAAGGTCATCATGAAGGCGGCCATGGCCAAGGCTATGGCTATGGCGCTGCTG
1 AGCACAAGGGAGAAGGTCATCACGAAGGCGGCCAT------GGCTATGGCTATGGAGCTGCTG
37300469 AGCACAAGGGAGAAGGTCATCACGAAGGCGGCCATGGCTATGGCTATGGAGCTGCTG
1 AGCACAAGGGAGAAGGTCATCACGAAGGCGGCCATGGCTATGGCTATGGAGCTGCTG
*
37300526 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGC
1 AGCACAAGGGAGAAGGTCATCACGAAGGCGGCCATGGCTATGGC
37300570 GCCGCTGCGG
Statistics
Matches: 98, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
57 64 0.65
63 34 0.35
ACGTcount: A:0.27, C:0.22, G:0.36, T:0.15
Consensus pattern (57 bp):
AGCACAAGGGAGAAGGTCATCACGAAGGCGGCCATGGCTATGGCTATGGAGCTGCTG
Found at i:37305763 original size:10 final size:10
Alignment explanation
Indices: 37305748--37305790 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
37305738 TAAATAATTT
37305748 AAAAATTATA
1 AAAAATTATA
37305758 AAAAATT-T-
1 AAAAATTATA
37305766 AAAAA-TATA
1 AAAAATTATA
37305775 AAAAATTCATA
1 AAAAATT-ATA
37305786 AAAAA
1 AAAAA
37305791 AATGAAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 1 0.03
8 6 0.21
9 6 0.21
10 8 0.28
11 8 0.28
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:37305774 original size:17 final size:18
Alignment explanation
Indices: 37305737--37305781 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
37305727 TGTCATGTTA
*
37305737 ATAAATAATTTAAAAATT
1 ATAAAAAATTTAAAAATT
37305755 ATAAAAAATTTAAAAA-T
1 ATAAAAAATTTAAAAATT
37305772 ATAAAAAATT
1 ATAAAAAATT
37305782 CATAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAAAAAATTTAAAAATT
Found at i:37309720 original size:17 final size:18
Alignment explanation
Indices: 37309681--37309721 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
37309671 GAAACATTTA
37309681 TTTTAATGTTATTATTGT
1 TTTTAATGTTATTATTGT
*
37309699 ATTTAATG-TATTATAT-T
1 TTTTAATGTTATTAT-TGT
37309716 TTTTAA
1 TTTTAA
37309722 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (18 bp):
TTTTAATGTTATTATTGT
Found at i:37314311 original size:17 final size:18
Alignment explanation
Indices: 37314285--37314323 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
37314275 CAAAAATATA
*
37314285 TTTA-TATTTATTTTA-T
1 TTTATTATTTATTATAGT
37314301 TTTATTATTTATTATAGT
1 TTTATTATTTATTATAGT
37314319 TTTAT
1 TTTAT
37314324 ATATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 10 0.50
18 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTATTATTTATTATAGT
Found at i:37315339 original size:18 final size:17
Alignment explanation
Indices: 37315314--37315352 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
37315304 TAACAATTAA
* * *
37315314 TTAATTTTTTAAAAATT
1 TTAAATTTTAAAAAAGT
37315331 TTAAATTTTAAAAAAGT
1 TTAAATTTTAAAAAAGT
37315348 TTAAA
1 TTAAA
37315353 ATAATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TTAAATTTTAAAAAAGT
Found at i:37317389 original size:20 final size:19
Alignment explanation
Indices: 37317353--37317400 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
37317343 TATGGTCACC
37317353 TTAAAAA-A-TATTAATTT
1 TTAAAAATATTATTAATTT
37317370 TTAAAAATATTATATAATTT
1 TTAAAAATATTAT-TAATTT
*
37317390 TAAAAAATATT
1 TTAAAAATATT
37317401 TTGTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.26
18 1 0.04
19 3 0.11
20 16 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAAAATATTATTAATTT
Found at i:37322345 original size:33 final size:33
Alignment explanation
Indices: 37322307--37322375 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
37322297 AAAATCAATC
*
37322307 ATTTATTTTGATCTAATGATTGAAATCATTTTG
1 ATTTATTTTGATCTAATGATTAAAATCATTTTG
37322340 ATTTATTTTGATCTAATGATTAAAATCATTTTG
1 ATTTATTTTGATCTAATGATTAAAATCATTTTG
37322373 ATT
1 ATT
37322376 ATCATAATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (33 bp):
ATTTATTTTGATCTAATGATTAAAATCATTTTG
Found at i:37335275 original size:15 final size:15
Alignment explanation
Indices: 37335257--37335292 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
37335247 ACGAAGCAAT
*
37335257 ATAATAAGCAGATAA
1 ATAATAAGCAAATAA
37335272 ATAATAAGCAAATAA
1 ATAATAAGCAAATAA
37335287 ATAATA
1 ATAATA
37335293 TGCGAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.06, G:0.08, T:0.22
Consensus pattern (15 bp):
ATAATAAGCAAATAA
Found at i:37335408 original size:28 final size:29
Alignment explanation
Indices: 37335377--37335437 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
37335367 AAAACGGGAC
*
37335377 TTTTGGATACCCG-GGGGCAAAATGGTAA
1 TTTTGGACACCCGAGGGGCAAAATGGTAA
* *
37335405 TTTTGGACGCGCGAGGGGCAAAATGGTAA
1 TTTTGGACACCCGAGGGGCAAAATGGTAA
37335434 TTTT
1 TTTT
37335438 TGGTGAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (29 bp):
TTTTGGACACCCGAGGGGCAAAATGGTAA
Found at i:37335451 original size:29 final size:29
Alignment explanation
Indices: 37335419--37335644 Score: 100
Period size: 30 Copynumber: 7.7 Consensus size: 29
37335409 GGACGCGCGA
* *
37335419 GGGGCAAAATGGTAATTTTTGGTGAAACC
1 GGGGAAAAATGGTAATTTTTGGTGAAATC
37335448 GGGGTTAAAAATGG-AA-TTTT-G-GAAAGTTC
1 GGGG--AAAAATGGTAATTTTTGGTGAAA--TC
* *
37335477 GAGGGTAAAATGGTAATTTTTGATGAAATC
1 G-GGGAAAAATGGTAATTTTTGGTGAAATC
37335507 GGGGTTAAAAATGG-AA-TTTT-G-GAAAGTTC
1 GGGG--AAAAATGGTAATTTTTGGTGAAA--TC
* * * *
37335536 GAGGGTAAAACGGTAATTTTTGATGAGATC
1 G-GGGAAAAATGGTAATTTTTGGTGAAATC
* *
37335566 GAGGTTAAAAATGG-AA-TTTT-G-GAAAGTTTA
1 G-GG-GAAAAATGGTAATTTTTGGTGAAA---TC
* *
37335596 GGGGTAAAATGGTAATTTTTGATGAAATC
1 GGGGAAAAATGGTAATTTTTGGTGAAATC
37335625 GGGGTTAAAAATGG-AATTTT
1 GGGG--AAAAATGGTAATTTT
37335645 GGAAAGTTCG
Statistics
Matches: 148, Mismatches: 21, Indels: 55
0.66 0.09 0.25
Matches are distributed among these distances:
27 11 0.07
28 21 0.14
29 37 0.25
30 41 0.28
31 27 0.18
32 11 0.07
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
GGGGAAAAATGGTAATTTTTGGTGAAATC
Found at i:37335468 original size:59 final size:60
Alignment explanation
Indices: 37335416--37335732 Score: 484
Period size: 59 Copynumber: 5.4 Consensus size: 60
37335406 TTTGGACGCG
* * *
37335416 CGAGGGGCAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
37335476 CGA-GGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
* * *
37335535 CGA-GGGTAAAACGGTAATTTTTGATGAGATCGAGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
*
37335594 -TAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
* *
37335653 CG-GGGGTAAAATGATAAATTTTGATGAAA-CTGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGAGGGGTAAAATGGTAATTTTTGATGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTT
* *
37335712 -TAGGGGTAAAATGATAATTTT
1 CGAGGGGTAAAATGGTAATTTT
37335733 CGGACAGTCC
Statistics
Matches: 238, Mismatches: 15, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
58 2 0.01
59 233 0.98
60 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (60 bp):
CGAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:37335730 original size:29 final size:28
Alignment explanation
Indices: 37335573--37335732 Score: 98
Period size: 29 Copynumber: 5.5 Consensus size: 28
37335563 ATCGAGGTTA
*
37335573 AAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGTAATTTTGGAAAGTTTAGGGGT
*
37335601 AAAATGGTAATTTTTGATGAAA---TCGGGGTT
1 AAAAT-GTAA-TTTTG--GAAAGTTTAGGGG-T
* **
37335631 AAAAATGGAATTTTGGAAAGTTCGGGGGT
1 -AAAATGTAATTTTGGAAAGTTTAGGGGT
*
37335660 AAAATGATAAATTTTGATGAAA--CT-GGGGTT
1 AAAATG-T-AATTTTG--GAAAGTTTAGGGG-T
*
37335690 AAAAATGGAATTTTGGAAAGTTTAGGGGT
1 -AAAATGTAATTTTGGAAAGTTTAGGGGT
37335719 AAAATGATAATTTT
1 AAAATG-TAATTTT
37335733 CGGACAGTCC
Statistics
Matches: 102, Mismatches: 11, Indels: 37
0.68 0.07 0.25
Matches are distributed among these distances:
27 8 0.08
28 17 0.17
29 33 0.32
30 25 0.25
31 11 0.11
32 8 0.08
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.33
Consensus pattern (28 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGT
Found at i:37337626 original size:6 final size:6
Alignment explanation
Indices: 37337615--37337692 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
37337605 TTAATTCAAT
* * *
37337615 TTTAAA TTTAAA TTTATAA --TAAA TTCAAA TTT-TA TGTAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
37337661 TTCAAA -ATAAA TTT-AA TTTAAA ATTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
37337693 TATCTTTATT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
4 2 0.04
5 13 0.24
6 37 0.69
7 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:37337637 original size:17 final size:17
Alignment explanation
Indices: 37337617--37337692 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
37337607 AATTCAATTT
*
37337617 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
* * **
37337634 TAAATTCAAATTTTATG
1 TAAATTTAAATTTAAAA
*
37337651 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
37337668 TAAATTT-AATTTAAAA
1 TAAATTTAAATTTAAAA
37337684 TTAAATTTA
1 -TAAATTTA
37337693 TATCTTTATT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
16 8 0.17
17 38 0.83
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:37343650 original size:18 final size:18
Alignment explanation
Indices: 37343613--37343661 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
37343603 ATGTAATTTC
*
37343613 ATTTA-TTAA-AAATTAT
1 ATTTATTTAATAAAATAT
37343629 -TTTATTTAATAAAATAT
1 ATTTATTTAATAAAATAT
*
37343646 ATTTATTAAATAAAAT
1 ATTTATTTAATAAAAT
37343662 TTGGACTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 6 0.21
18 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATTTAATAAAATAT
Found at i:37344093 original size:2 final size:2
Alignment explanation
Indices: 37344086--37344110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37344076 TAAACGTATT
37344086 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
37344111 ATAATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37345803 original size:24 final size:24
Alignment explanation
Indices: 37345775--37345863 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 24
37345765 GGGTCAATTT
* *
37345775 AATTTAAGTTTAAAATGATTTTTA
1 AATTTAAATTTAAAATAATTTTTA
*
37345799 AATTT-ATTTCTAAAATTAAATTTACTTTA
1 AATTTAAATT-TAAAA-T-AA-TT--TTTA
* *
37345828 AATTTAAATTTAAATTCATTTTTA
1 AATTTAAATTTAAAATAATTTTTA
37345852 AATTTAAATTTA
1 AATTTAAATTTA
37345864 TTTTAAATTG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
23 3 0.06
24 26 0.49
25 1 0.02
26 3 0.06
27 3 0.06
28 1 0.02
29 13 0.25
30 3 0.06
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
AATTTAAATTTAAAATAATTTTTA
Found at i:37345804 original size:6 final size:6
Alignment explanation
Indices: 37345795--37345915 Score: 67
Period size: 6 Copynumber: 21.0 Consensus size: 6
37345785 TAAAATGATT
* * *
37345795 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * * *
37345842 TTCATT TTTAAA TTTAAA TTT-AT TTTAAA -TTGAA TTT-AG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
37345887 TTTGAAA --TAAT TTTAAA ATTAAA ATTAAA
1 TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
37345916 AAGCCCAAAA
Statistics
Matches: 86, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
4 2 0.02
5 20 0.23
6 59 0.69
7 5 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Done.