Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000073.1 Hibiscus syriacus cultivar Beakdansim tig00000132_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1402814
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 4 of 7
Found at i:591343 original size:14 final size:14
Alignment explanation
Indices: 591325--591364 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
591315 ATAGTTTATG
*
591325 GTTTAAGGTTTAGTA
1 GTTTAGGGTTTAG-A
591340 -TTTAGGGTTTAGA
1 GTTTAGGGTTTAGA
591353 GTTTAGGGTTTA
1 GTTTAGGGTTTA
591365 TTACAAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 22 0.96
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:591364 original size:21 final size:21
Alignment explanation
Indices: 591286--591365 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
591276 TATCACATAA
*
591286 TTAGA-TTTAGGGTTTATAGT
1 TTAGAGTTTAGGGTTTATGGT
* * **
591306 ATATAGTTTATAGTTTATGGT
1 TTAGAGTTTAGGGTTTATGGT
** *
591327 TTA-AGGTTTAGTATTTAGGGT
1 TTAGA-GTTTAGGGTTTATGGT
591348 TTAGAGTTTAGGGTTTAT
1 TTAGAGTTTAGGGTTTAT
591366 TACAAAGACA
Statistics
Matches: 44, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
20 4 0.09
21 39 0.89
22 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
TTAGAGTTTAGGGTTTATGGT
Found at i:591469 original size:14 final size:14
Alignment explanation
Indices: 591430--591506 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
591420 AGTATTTGGT
*
591430 GTTTA-GGTATTATA
1 GTTTAGGGT-TTAGA
**
591444 GTTTAGAATTTAGA
1 GTTTAGGGTTTAGA
591458 GTTTAGGGTTTA-A
1 GTTTAGGGTTTAGA
591471 TGTTTAGGGTTTATGA
1 -GTTTAGGGTTTA-GA
* * *
591487 -TTTATGATTTAGG
1 GTTTAGGGTTTAGA
591500 GTTTAGG
1 GTTTAGG
591507 AGTTAAGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.04
14 45 0.92
15 1 0.02
16 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:591476 original size:21 final size:21
Alignment explanation
Indices: 591451--591507 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
591441 ATAGTTTAGA
* *
591451 ATTTAGAGTTTAGGGTTTAATG
1 ATTTAGGGTTTAGGATTT-ATG
*
591473 -TTTAGGGTTTATGATTTATG
1 ATTTAGGGTTTAGGATTTATG
591493 ATTTAGGGTTTAGGA
1 ATTTAGGGTTTAGGA
591508 GTTAAGGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (21 bp):
ATTTAGGGTTTAGGATTTATG
Found at i:607816 original size:7 final size:7
Alignment explanation
Indices: 607783--607827 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
607773 CCTAAAATAC
607783 TAAT-AT
1 TAATAAT
607789 TAATTAAT
1 TAA-TAAT
607797 TATATAA-
1 TA-ATAAT
607804 TAATAAT
1 TAATAAT
607811 TAATAAT
1 TAATAAT
607818 TAATAAT
1 TAATAAT
607825 TAA
1 TAA
607828 AGCATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.20
7 20 0.57
8 7 0.20
9 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATAAT
Found at i:609112 original size:3 final size:3
Alignment explanation
Indices: 609104--609134 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
609094 TTGTAAGAAT
609104 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
609135 TTATTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:609362 original size:35 final size:36
Alignment explanation
Indices: 609323--609394 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
609313 TGATCTGTTC
609323 TTGCTTCACTACTCTTTTGTGAAGGCTTGA-TTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
609358 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
609394 T
1 T
609395 GACTTAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (36 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTTGATTTGCA
Found at i:616368 original size:22 final size:22
Alignment explanation
Indices: 616340--616384 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
616330 AGGTGGATAT
616340 ACATGTACAGCTATGTCTCTCC
1 ACATGTACAGCTATGTCTCTCC
616362 ACATGTACAGCTATGTCTCTCC
1 ACATGTACAGCTATGTCTCTCC
616384 A
1 A
616385 TTTCTGGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ACATGTACAGCTATGTCTCTCC
Found at i:618257 original size:15 final size:15
Alignment explanation
Indices: 618237--618269 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
618227 CGTAGGACCC
*
618237 CTACATCCCGAAGGA
1 CTACATCCCAAAGGA
618252 CTACATCCCAAAGGA
1 CTACATCCCAAAGGA
618267 CTA
1 CTA
618270 TTATACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (15 bp):
CTACATCCCAAAGGA
Found at i:618448 original size:12 final size:12
Alignment explanation
Indices: 618414--618448 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
618404 TATCATGTTC
**
618414 TCATATCACAGG
1 TCATATCACATA
618426 TCATATCACATA
1 TCATATCACATA
618438 TCATATCACAT
1 TCATATCACAT
618449 GAACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (12 bp):
TCATATCACATA
Found at i:618865 original size:64 final size:63
Alignment explanation
Indices: 618757--618977 Score: 248
Period size: 64 Copynumber: 3.5 Consensus size: 63
618747 TAATGAAGGT
* * ** * **
618757 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-TTATTATTAATGGG
* **
618821 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTT-ATTATTAATGGG
* **
618885 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT-TTATTTTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTA--TTAATGGG
**
618948 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
618978 ACACCTTCAA
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 129 0.95
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATTAATGGG
Found at i:624316 original size:3 final size:3
Alignment explanation
Indices: 624308--624333 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
624298 TTGTAAGAAT
624308 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
624334 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:624988 original size:17 final size:17
Alignment explanation
Indices: 624966--625005 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
624956 TTTGTCTCAT
* *
624966 TTATTATTATATTATTA
1 TTATTATTAAATAATTA
624983 TTATTATTAAATAATTA
1 TTATTATTAAATAATTA
625000 TTATTA
1 TTATTA
625006 CAGGCCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATTAAATAATTA
Found at i:625631 original size:23 final size:26
Alignment explanation
Indices: 625605--625660 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
625595 ATATTTATTA
625605 TTTT-AATTTTT-TT-ATT-TACATAT
1 TTTTAAATTTTTGTTAATTATA-ATAT
625628 TTTTAAATTTTTGTTAATTATAATA-
1 TTTTAAATTTTTGTTAATTATAATAT
625653 TTTTAAAT
1 TTTTAAAT
625661 GTTATTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.14
24 7 0.24
25 10 0.34
26 6 0.21
27 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTAAATTTTTGTTAATTATAATAT
Found at i:625639 original size:25 final size:25
Alignment explanation
Indices: 625611--625669 Score: 59
Period size: 25 Copynumber: 2.3 Consensus size: 25
625601 ATTATTTTAA
625611 TTTTTTTATT-TACATATTTTTAAAT-
1 TTTTTTTATTATA-ATA-TTTTAAATG
*
625636 TTTTGTTAATTATAATATTTTAAATG
1 TTTT-TTTATTATAATATTTTAAATG
*
625662 TTATTTTA
1 TTTTTTTA
625670 CTCGAGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 15 0.54
26 11 0.39
27 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTTTTATTATAATATTTTAAATG
Found at i:630704 original size:51 final size:51
Alignment explanation
Indices: 630482--630951 Score: 553
Period size: 51 Copynumber: 8.9 Consensus size: 51
630472 TGGCGGGTCT
* * * ** *
630482 GCTCCCTATTCTTTCAGGGAGTATAAGACTCAAACAATCTTCGGCAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGTGTCC
** * * *
630537 GCTCCCTATTCAGTCAGGGAGTATAAGACTCAAACAATCTTCAACAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGTGTCC
* * * *
630592 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCAACAAACGTGTCC
* * *
630647 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* *
630698 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGTGTCC
* *
630753 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* * *
630804 GCTCCCTATTTCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
* *
630855 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
630906 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
630952 AGTTTGCTTC
Statistics
Matches: 385, Mismatches: 22, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
51 212 0.55
55 173 0.45
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACGTGTCC
Found at i:630737 original size:106 final size:106
Alignment explanation
Indices: 630482--630938 Score: 589
Period size: 106 Copynumber: 4.3 Consensus size: 106
630472 TGGCGGGTCT
* * * ** *
630482 GCTCCCTATTCTTTCAGGGAGTATAAGACTCAAACAATCTTCGGCAAACGTGTCTGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGTGTCCGCTCCCTATT
** * *
630547 CAGTCAGGGAGTATAAGACTCAAACAATCTTCAACAAACGTGTCT
66 CCTTCAGAGAGTATAAGACT----CAATCTTCAACAAACGTGTCC
* * * * * *
630592 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGTGTCCGCTCCCTATT
* *
630657 CCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
66 CCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCC
* *
630698 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACGAACTTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGTGTCCGCTCCCTATT
* * *
630763 CCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
66 CCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCC
* * *
630804 GCTCCCTATTTCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGTGTCCGCTCCCTATT
* * *
630865 CCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
66 CCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCC
630906 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAA
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAA
630939 TCTTCAACAA
Statistics
Matches: 316, Mismatches: 28, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
102 101 0.32
106 140 0.44
110 75 0.24
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (106 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACAAACGTGTCCGCTCCCTATT
CCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCC
Found at i:630997 original size:38 final size:38
Alignment explanation
Indices: 630955--631059 Score: 192
Period size: 38 Copynumber: 2.8 Consensus size: 38
630945 ACAAACGAGT
*
630955 TTGCTTCACTACTCTTTCGTGAAGGCTTATAGATTTAA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTATAGATTTAA
*
630993 TTGCTTCACTGCTCTTACGTGAAGGCTTATAGATTTAA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTATAGATTTAA
631031 TTGCTTCACTGCTCTTTCGTGAAGGCTTA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTA
631060 AAATTTACTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (38 bp):
TTGCTTCACTGCTCTTTCGTGAAGGCTTATAGATTTAA
Found at i:632363 original size:17 final size:16
Alignment explanation
Indices: 632341--632480 Score: 66
Period size: 16 Copynumber: 8.9 Consensus size: 16
632331 TCTCCTTTTA
632341 TTTCTCTTTTTTTCAT
1 TTTCTCTTTTTTTCAT
632357 TTT-TCTCTTTTTTCAT
1 TTTCTCT-TTTTTTCAT
*
632373 TTTC-CATTTTTTC--
1 TTTCTCTTTTTTTCAT
*
632386 -TTAT-TTTTTTTC-T
1 TTTCTCTTTTTTTCAT
*
632399 TTTCGT-TTTTTCCATCAT
1 TTTC-TCTTTTT--TTCAT
632417 TTTC-CTTTTTTCTCATT
1 TTTCTCTTTTTT-TCA-T
* * *
632434 TTTTTCTTCTTCTCAT
1 TTTCTCTTTTTTTCAT
* *
632450 TTTC-ATTTTTTTCTTT
1 TTTCTCTTTTTTTC-AT
632466 TTTCTCTTTTATTTC
1 TTTCTCTTTT-TTTC
632481 TTCTTCAAGC
Statistics
Matches: 93, Mismatches: 15, Indels: 30
0.67 0.11 0.22
Matches are distributed among these distances:
12 9 0.10
14 2 0.02
15 22 0.24
16 28 0.30
17 18 0.19
18 14 0.15
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTCTCTTTTTTTCAT
Found at i:632386 original size:41 final size:39
Alignment explanation
Indices: 632341--632482 Score: 119
Period size: 41 Copynumber: 3.4 Consensus size: 39
632331 TCTCCTTTTA
632341 TTTCTCTTTTTTTCATTTTTCTCTTTTTTCATTTTCCATTT
1 TTTCTCTTTTTTTC-TTTTTCTCTTTTTTCATTTTCC-TTT
*
632382 TTTCT-TATTTTTTTTCTTTTCGT-TTTTTCCATCATTTTCCTTT
1 TTTCTCT-TTTTTTCT-TTTTC-TCTTTTT---TCATTTTCCTTT
* * *
632425 TTTCTCATTTTTTTCTTCTTCTC-ATTTTCATTTTTTTCTTT
1 TTTCTC-TTTTTTTCTTTTTCTCTTTTTTCA--TTTTCCTTT
632466 TTTCTCTTTTATTTCTT
1 TTTCTCTTTT-TTTCTT
632483 CTTCAAGCGA
Statistics
Matches: 84, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
39 3 0.04
40 6 0.07
41 41 0.49
42 5 0.06
43 12 0.14
44 16 0.19
45 1 0.01
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (39 bp):
TTTCTCTTTTTTTCTTTTTCTCTTTTTTCATTTTCCTTT
Found at i:642157 original size:45 final size:47
Alignment explanation
Indices: 642090--642197 Score: 157
Period size: 45 Copynumber: 2.3 Consensus size: 47
642080 CCATGCTTTG
642090 TTATTCACAAAAATAAATCCTAACAGCATGATATCTAATTCGCATAC-
1 TTATTCA-AAAAATAAATCCTAACAGCATGATATCTAATTCGCATACA
* *
642137 TTATTCAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATACA
1 TTATTCAAAAAATAAATCCTAACAGCATGATATCTAATTCGCATACA
642183 TTTATTCGAAAAAAT
1 -TTATTC-AAAAAAT
642198 GAAAATAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
45 27 0.48
46 9 0.16
47 13 0.23
48 7 0.12
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (47 bp):
TTATTCAAAAAATAAATCCTAACAGCATGATATCTAATTCGCATACA
Found at i:648476 original size:15 final size:15
Alignment explanation
Indices: 648457--648491 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
648447 TTTGCAATTT
648457 AATTTTTAT-TTTTA
1 AATTTTTATATTTTA
648471 ATATTTTTATATTTTA
1 A-ATTTTTATATTTTA
648487 AATTT
1 AATTT
648492 AGAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 12 0.63
16 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTTTATATTTTA
Found at i:648479 original size:22 final size:22
Alignment explanation
Indices: 648454--648509 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
648444 TTTTTTGCAA
**
648454 TTTAATTTTTATTTTTAATATT
1 TTTAATTTTTATTTAGAATATT
*
648476 TTTATATTTTAAATTTAGAATATT
1 TTTA-ATTTT-TATTTAGAATATT
648500 TTT-ATTTTTA
1 TTTAATTTTTA
648510 AAAGAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 5 0.18
24 13 0.46
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTAATTTTTATTTAGAATATT
Found at i:652912 original size:31 final size:31
Alignment explanation
Indices: 652874--652932 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
652864 GATGAGAGCA
652874 TTGACTATCACTCTTAGGTATAATATTAGCT
1 TTGACTATCACTCTTAGGTATAATATTAGCT
*
652905 TTGACTATCACTCTTAGGTATATTATTA
1 TTGACTATCACTCTTAGGTATAATATTA
652933 AAGTATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (31 bp):
TTGACTATCACTCTTAGGTATAATATTAGCT
Found at i:654344 original size:32 final size:31
Alignment explanation
Indices: 654308--654379 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
654298 GCCTGCGAGT
* * *
654308 CTACCTAAGAATATTCTC-GGGCCCACAAAGGC
1 CTACCCAAGAAAAATCTCAGGG-CCACAAA-GC
*
654340 CTACCCAAGAAAAATCTCAGGGCCACATAGC
1 CTACCCAAGAAAAATCTCAGGGCCACAAAGC
654371 CTACCCAAG
1 CTACCCAAG
654380 GGTCGCCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.31
32 21 0.60
33 3 0.09
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (31 bp):
CTACCCAAGAAAAATCTCAGGGCCACAAAGC
Found at i:654540 original size:12 final size:12
Alignment explanation
Indices: 654523--654581 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
654513 ACGGAGATAT
*
654523 CAGAAATCAGAG
1 CAGAAATCAGAA
654535 CAGAAATCAGAA
1 CAGAAATCAGAA
* * *
654547 CATAACTCAGAG
1 CAGAAATCAGAA
654559 CAGAAATCAGAA
1 CAGAAATCAGAA
*
654571 CCGAAATCAGA
1 CAGAAATCAGA
654582 TAAAATATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.51, C:0.20, G:0.19, T:0.10
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:654580 original size:24 final size:24
Alignment explanation
Indices: 654523--654581 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
654513 ACGGAGATAT
654523 CAGAAATCAGAGCAGAAATCAGAA
1 CAGAAATCAGAGCAGAAATCAGAA
* *
654547 CATAACTCAGAGCAGAAATCAGAA
1 CAGAAATCAGAGCAGAAATCAGAA
*
654571 CCGAAATCAGA
1 CAGAAATCAGA
654582 TAAAATATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.20, G:0.19, T:0.10
Consensus pattern (24 bp):
CAGAAATCAGAGCAGAAATCAGAA
Found at i:656004 original size:14 final size:14
Alignment explanation
Indices: 655985--656044 Score: 79
Period size: 14 Copynumber: 4.4 Consensus size: 14
655975 ATCTTGTAAA
655985 AACTATTATGTCAT
1 AACTATTATGTCAT
655999 AACTATTATGTCAT
1 AACTATTATGTCAT
** *
656013 AACTA-TA-ACCAC
1 AACTATTATGTCAT
656025 AACTATTATGTCAT
1 AACTATTATGTCAT
656039 AACTAT
1 AACTAT
656045 AACCACTTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
12 7 0.18
13 4 0.11
14 27 0.71
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (14 bp):
AACTATTATGTCAT
Found at i:656030 original size:26 final size:26
Alignment explanation
Indices: 655999--656050 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
655989 ATTATGTCAT
655999 AACTATTATGTCATAACTATAACCAC
1 AACTATTATGTCATAACTATAACCAC
656025 AACTATTATGTCATAACTATAACCAC
1 AACTATTATGTCATAACTATAACCAC
656051 TTGGAAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (26 bp):
AACTATTATGTCATAACTATAACCAC
Found at i:658478 original size:17 final size:17
Alignment explanation
Indices: 658456--658509 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
658446 AATGTTAATA
658456 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
658473 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
658490 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
658507 TTT
1 TTT
658510 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:664629 original size:20 final size:20
Alignment explanation
Indices: 664604--664650 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
664594 GGGTTCATAG
664604 CACAGAGCAGAGTAGATTGA
1 CACAGAGCAGAGTAGATTGA
664624 CACAGAGCAGAGTAGATTGA
1 CACAGAGCAGAGTAGATTGA
664644 CACAGAG
1 CACAGAG
664651 GTAGCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.13
Consensus pattern (20 bp):
CACAGAGCAGAGTAGATTGA
Found at i:666511 original size:22 final size:22
Alignment explanation
Indices: 666483--666524 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
666473 ATGTAGGAAA
*
666483 TAAATTGAACACGTGATGAACT
1 TAAATTGAACACATGATGAACT
666505 TAAATTGAACACATGATGAA
1 TAAATTGAACACATGATGAA
666525 ATTTAGAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (22 bp):
TAAATTGAACACATGATGAACT
Found at i:667779 original size:15 final size:15
Alignment explanation
Indices: 667759--667789 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
667749 CAACAAATAA
667759 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
667774 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
667789 A
1 A
667790 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:668637 original size:32 final size:33
Alignment explanation
Indices: 668601--668678 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
668591 GTCTGCATGT
668601 GCCATGCACGTCCCCAACA-CCCAACACAGGTC
1 GCCATGCACGTCCCCAACACCCCAACACAGGTC
668633 GCCATGCACGTCCCCAACACCCCAACACAGGTC
1 GCCATGCACGTCCCCAACACCCCAACACAGGTC
668666 GCCATGCAC-TCCC
1 GCCATGCACGTCCC
668679 AGCAACCTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
32 23 0.51
33 22 0.49
ACGTcount: A:0.26, C:0.49, G:0.15, T:0.10
Consensus pattern (33 bp):
GCCATGCACGTCCCCAACACCCCAACACAGGTC
Found at i:668786 original size:23 final size:23
Alignment explanation
Indices: 668756--668799 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
668746 GTGCATGCGT
668756 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
668779 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
668800 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:669265 original size:28 final size:30
Alignment explanation
Indices: 669225--669286 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 30
669215 AATTTAGTTA
*
669225 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGCTTGTTAGTTTAAGTTATATATTAT
669253 ATTAGCTTGTTAGTTTAAGTTATATATTAT
1 ATTAGCTTGTTAGTTTAAGTTATATATTAT
669283 ATTA
1 ATTA
669287 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (30 bp):
ATTAGCTTGTTAGTTTAAGTTATATATTAT
Found at i:669828 original size:20 final size:21
Alignment explanation
Indices: 669784--669828 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
669774 AAATATTGTG
**
669784 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
669805 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
669825 TTTA
1 TTTA
669829 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:670219 original size:5 final size:5
Alignment explanation
Indices: 670211--670241 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
670201 AATATAATAG
670211 TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
670242 TAATGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:673118 original size:13 final size:12
Alignment explanation
Indices: 673082--673252 Score: 58
Period size: 11 Copynumber: 14.1 Consensus size: 12
673072 TAGTAATGAA
673082 ATTATAATAATG
1 ATTATAATAATG
*
673094 ATT-TAGTAATG
1 ATTATAATAATG
673105 ATTAGTAATAATG
1 ATTA-TAATAATG
*
673118 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
673132 ATT-TAATGAT-
1 ATTATAATAATG
*
673142 -TTGATATTAATG
1 ATT-ATAATAATG
*
673154 ATTTGATATTAATG
1 A-TT-ATAATAATG
*
673168 ATT-TAGTAATG
1 ATTATAATAATG
673179 ATTAGTAATAATG
1 ATTA-TAATAATG
*
673192 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
673206 ATT-TAATGAT-
1 ATTATAATAATG
*
673216 -TTGATAGTAATG
1 ATT-ATAATAATG
*
673228 ATT-TAGTAATG
1 ATTATAATAATG
673239 ATTAGTAATAATG
1 ATTA-TAATAATG
673252 A
1 A
673253 AATTATTATT
Statistics
Matches: 123, Mismatches: 17, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
9 4 0.03
10 10 0.08
11 41 0.33
12 9 0.07
13 26 0.21
14 13 0.11
15 20 0.16
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:673120 original size:38 final size:38
Alignment explanation
Indices: 673075--673210 Score: 158
Period size: 38 Copynumber: 3.6 Consensus size: 38
673065 ACATAACTAG
*
673075 TAATGAAATTATAATAATGATTTAGTAATGATTAGTAA
1 TAATGAAATTATATTAATGATTTAGTAATGATTAGTAA
* *
673113 TAATGAAATTATTATTAAT-A-TT--TAATGATTTGATAT
1 TAATGAAATTA-TATTAATGATTTAGTAATGATTAG-TAA
*
673149 TAATG-ATTTGATATTAATGATTTAGTAATGATTAGTAA
1 TAATGAAATT-ATATTAATGATTTAGTAATGATTAGTAA
673187 TAATGAAATTATTATTAAT-ATTTA
1 TAATGAAATTA-TATTAATGATTTA
673211 ATGATTTGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 18
0.77 0.07 0.17
Matches are distributed among these distances:
35 19 0.23
36 9 0.11
37 4 0.05
38 25 0.30
39 25 0.30
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (38 bp):
TAATGAAATTATATTAATGATTTAGTAATGATTAGTAA
Found at i:673153 original size:14 final size:14
Alignment explanation
Indices: 673134--673171 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
673124 TTATTAATAT
673134 TTAATGATTTGATA
1 TTAATGATTTGATA
673148 TTAATGATTTGATA
1 TTAATGATTTGATA
673162 TTAATGATTT
1 TTAATGATTT
673172 AGTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:673153 original size:74 final size:73
Alignment explanation
Indices: 673072--673247 Score: 277
Period size: 74 Copynumber: 2.4 Consensus size: 73
673062 TTTACATAAC
673072 TAGTAATGAAATTATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTA
1 TAGTAATG-AATTATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTA
673137 ATGATTTGA
65 ATGATTTGA
* * *
673146 TATTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTA
1 TAGTAATGAATT-ATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTA
673211 ATGATTTGA
65 ATGATTTGA
*
673220 TAGTAATG-ATT-TAGTAATGA-TTAGTAAT
1 TAGTAATGAATTATAATAATGATTTAGTAAT
673248 AATGAAATTA
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
70 8 0.08
71 8 0.08
73 5 0.05
74 74 0.78
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (73 bp):
TAGTAATGAATTATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
TGATTTGA
Found at i:673155 original size:60 final size:60
Alignment explanation
Indices: 673089--673740 Score: 497
Period size: 60 Copynumber: 11.3 Consensus size: 60
673079 GAAATTATAA
673089 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
673149 TAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 T-A--A--TG--ATT--T-A----GTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
*
673214 ATTTGATAG
52 ATTTGATAT
673223 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* * *
673283 TAATAATTTAGTAATGATTAGTAATAAAGAAATTATTATTAAT-TTT--T-A-ATG--AT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* *
673336 T--TGA--TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGACAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
* * * * * *
673391 TAATGATTTGACATTAATGATT--TAGTAATG-ATTTGA-TAGTAATGATTT-ACGACTTGA-A-
1 TAATGATTT---AGTAATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGATAT
* * * * ** * * * * *
673449 CAATGA---A-CAATGTTTGGTTCAATTAACCATATT-TTCGTT-ACA-TTAATGAAATT-ATAA
1 TAATGATTTAGTAATGATTAG-T-AA-TAATGAAATTATT-ATTAATATTTAATG-ATTTGATAT
673506 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
*
673566 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATG--AT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
*
673619 T--TGA--TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
673674 TAATGA-TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
*
673722 TAATGATTTAGAAATGATT
1 TAATGATTTAGTAATGATT
673741 TGATAGTAAT
Statistics
Matches: 483, Mismatches: 41, Indels: 141
0.73 0.06 0.21
Matches are distributed among these distances:
48 60 0.12
49 49 0.10
51 20 0.04
52 5 0.01
53 11 0.02
54 4 0.01
55 16 0.03
56 11 0.02
57 16 0.03
58 17 0.04
59 17 0.04
60 168 0.35
61 13 0.03
62 9 0.02
63 1 0.00
64 1 0.00
65 3 0.01
67 6 0.01
69 3 0.01
70 1 0.00
71 1 0.00
73 1 0.00
74 50 0.10
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.46
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
Found at i:673224 original size:39 final size:39
Alignment explanation
Indices: 673107--673226 Score: 137
Period size: 39 Copynumber: 3.2 Consensus size: 39
673097 TAGTAATGAT
673107 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* * *
673146 TA-T--TAATG-ATTTGA-TATTAATGATTTAGT-A-ATGA
1 TAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTGA
673180 TTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 -TAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
673220 TAGTAAT
1 TAGTAAT
673227 GATTTAGTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
34 3 0.05
35 13 0.20
36 13 0.20
38 13 0.20
39 20 0.31
40 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (39 bp):
TAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:673274 original size:120 final size:108
Alignment explanation
Indices: 673148--673740 Score: 469
Period size: 108 Copynumber: 5.3 Consensus size: 108
673138 TGATTTGATA
*
673148 TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAAT
1 TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAAT
673213 GATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
66 GATTTGATAGTAATGA-TTAG---T-A--A-TAATAAT----TTATTATTAATAT
* *
673268 TTAATGATTTGATATTAATAATTTAGTAATGATTAGTAATAAAGAAATTATTATTAATTTTTAAT
1 TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAAT
673333 GATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATAT
66 GATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATAT
* * * *
673376 TTAATGATTTGACATTAATGATTTGACATTAATGATTTAGTAAT---G-ATTTGA-TAGTAATGA
1 TTAATGATTTGATATTAATGATTT---AGTAATGA-TTAGTAATAAAGAAATT-ATTATTAAT-A
* * ** * * * ** *
673436 TTT-ACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTT-TCGTT-ACA-
60 TTTAATGATTTG----AT-AGTAATGATTAG-T-AA-TAA-TA-ATTTATTATTAATAT
* * *
673491 TTAATGAAATT-ATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
1 TTAATG-ATTTGATATTAATGATTTAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAA
* * * * * * *
673555 TGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAA-A-
65 TGATTTGATAGTAATGA-TTAGTAATAATAATTTATTATTAATAT
* * * * *
673598 TT-ATTA-TTAATTTTTAATGATTTGATAGTAATGATTAGTAAT-AATAATTTATTATTAATATT
1 TTAATGATTTGA-TATTAATGA-TT--TAGTAATGATTAGTAATAAAGAAATTATTATTAATATT
*
673660 TAATGATTTGATATTAATGATTAGTAATAATAATTTATTATTAATAT
62 TAATGATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATAT
*
673707 TTAATGATTTGATATTAATGATTTAGAAATGATT
1 TTAATGATTTGATATTAATGATTTAGTAATGATT
673741 TGATAGTAAT
Statistics
Matches: 383, Mismatches: 55, Indels: 83
0.74 0.11 0.16
Matches are distributed among these distances:
104 2 0.01
105 2 0.01
106 11 0.03
107 35 0.09
108 91 0.24
109 28 0.07
110 17 0.04
111 23 0.06
112 24 0.06
113 9 0.02
114 7 0.02
115 35 0.09
116 9 0.02
117 4 0.01
118 4 0.01
119 4 0.01
120 78 0.20
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.46
Consensus pattern (108 bp):
TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAAT
GATTTGATAGTAATGATTAGTAATAATAATTTATTATTAATAT
Found at i:673309 original size:21 final size:21
Alignment explanation
Indices: 673163--673309 Score: 71
Period size: 21 Copynumber: 7.3 Consensus size: 21
673153 GATTTGATAT
*
673163 TAATGATTTAGTAATGATTAG
1 TAATAATTTAGTAATGATTAG
* * *
673184 TAATAA--T-GAAATTATTAT
1 TAATAATTTAGTAATGATTAG
* *
673202 TAAT-ATTTAATGATTTGA-TAG
1 TAATAATTTAGT-A-ATGATTAG
*
673223 TAATGATTTAGTAATGATTAG
1 TAATAATTTAGTAATGATTAG
* * *
673244 TAATAA--T-GAAATTATTAT
1 TAATAATTTAGTAATGATTAG
* * *
673262 TAAT-ATTTAATGATTTGA-TAT
1 TAATAATTTAGT-A-ATGATTAG
673283 TAATAATTTAGTAATGATTAG
1 TAATAATTTAGTAATGATTAG
673304 TAATAA
1 TAATAA
673310 AGAAATTATT
Statistics
Matches: 90, Mismatches: 22, Indels: 28
0.64 0.16 0.20
Matches are distributed among these distances:
17 2 0.02
18 24 0.27
19 4 0.04
20 6 0.07
21 38 0.42
22 16 0.18
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (21 bp):
TAATAATTTAGTAATGATTAG
Found at i:673382 original size:48 final size:49
Alignment explanation
Indices: 673291--673398 Score: 164
Period size: 48 Copynumber: 2.2 Consensus size: 49
673281 ATTAATAATT
*
673291 TAGTAATGATTAGTAATAAAGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAATGATTTGA
* *
673340 TAGTAATGATTAGTAAT-AATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAATGATTTGA
* *
673388 CATTAATGATT
1 TAGTAATGATT
673399 TGACATTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 37 0.69
49 17 0.31
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAATGATTTGA
Found at i:673393 original size:14 final size:14
Alignment explanation
Indices: 673376--673438 Score: 78
Period size: 14 Copynumber: 4.7 Consensus size: 14
673366 TTATTAATAT
673376 TTAATGATTTGACA
1 TTAATGATTTGACA
673390 TTAATGATTTGACA
1 TTAATGATTTGACA
673404 TTAATGATTT---A
1 TTAATGATTTGACA
* *
673415 GTAATGATTTGATA
1 TTAATGATTTGACA
*
673429 GTAATGATTT
1 TTAATGATTT
673439 ACGACTTGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
11 10 0.22
14 35 0.78
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (14 bp):
TTAATGATTTGACA
Found at i:673425 original size:25 final size:25
Alignment explanation
Indices: 673391--673439 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
673381 GATTTGACAT
*
673391 TAATGATTTGACATTAATGATTTAG
1 TAATGATTTGACAGTAATGATTTAG
*
673416 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGACAGTAATGATTTA
673440 CGACTTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAATGATTTGACAGTAATGATTTAG
Found at i:673530 original size:21 final size:20
Alignment explanation
Indices: 673506--673591 Score: 52
Period size: 21 Copynumber: 4.2 Consensus size: 20
673496 GAAATTATAA
673506 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * *
673527 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* * *
673545 TAATATTTAATGATTTGA-TAT
1 TAATATTTAGT-A-ATGATTAG
673566 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
673587 TAATA
1 TAATA
673592 ATGAAATTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 13
0.65 0.17 0.18
Matches are distributed among these distances:
18 13 0.28
19 2 0.04
20 5 0.11
21 19 0.40
22 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (20 bp):
TAATATTTAGTAATGATTAG
Found at i:673535 original size:13 final size:12
Alignment explanation
Indices: 673499--673595 Score: 53
Period size: 11 Copynumber: 8.1 Consensus size: 12
673489 CATTAATGAA
673499 ATTATAATAATG
1 ATTATAATAATG
*
673511 ATT-TAGTAATG
1 ATTATAATAATG
673522 ATTAGTAATAATG
1 ATTA-TAATAATG
*
673535 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
673549 ATT-TAATGAT-
1 ATTATAATAATG
*
673559 -TTGATATTAATG
1 ATT-ATAATAATG
*
673571 ATT-TAGTAATG
1 ATTATAATAATG
673582 ATTAGTAATAATG
1 ATTA-TAATAATG
673595 A
1 A
673596 AATTATTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.03
10 5 0.08
11 25 0.38
12 6 0.09
13 17 0.26
15 10 0.15
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:673663 original size:21 final size:22
Alignment explanation
Indices: 673639--673756 Score: 89
Period size: 21 Copynumber: 5.1 Consensus size: 22
673629 TGATTAGTAA
673639 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
673660 TAATGATTTGATATTAATGATT
1 TAATAATTTGATATTAATGATT
*
673682 AGTAATAATAATTTATTATTAAT-ATT
1 --TAATAAT--TTGA-TATTAATGATT
*
673708 TAATGATTTGATATTAATGATT
1 TAATAATTTGATATTAATGATT
* *
673730 TAGAAATGATTTGATAGTAATGATT
1 T---AATAATTTGATATTAATGATT
673755 TA
1 TA
673757 CGACTTGAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
21 22 0.28
22 12 0.15
24 12 0.15
25 21 0.26
26 6 0.08
27 7 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:673666 original size:48 final size:48
Alignment explanation
Indices: 673574--673729 Score: 267
Period size: 48 Copynumber: 3.2 Consensus size: 48
673564 ATTAATGATT
* *
673574 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
673623 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
673671 TATTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
*
673719 TATTAATGATT
1 TAGTAATGATT
673730 TAGAAATGAT
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
48 84 0.81
49 20 0.19
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
Found at i:673676 original size:14 final size:14
Alignment explanation
Indices: 673659--673755 Score: 65
Period size: 14 Copynumber: 6.7 Consensus size: 14
673649 TTATTAATAT
673659 TTAATGATTTGATA
1 TTAATGATTTGATA
*
673673 TTAATGATTAGTAATA
1 TTAATGATT--TGATA
* * *
673689 ATAATTTATTATTAATA
1 TTAA-TGA-T-TTGATA
673706 TTTAATGATTTGATA
1 -TTAATGATTTGATA
*
673721 TTAATGATTT-AGA
1 TTAATGATTTGATA
673734 --AATGATTTGATA
1 TTAATGATTTGATA
*
673746 GTAATGATTT
1 TTAATGATTT
673756 ACGACTTGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
11 8 0.12
12 2 0.03
13 2 0.03
14 27 0.41
15 5 0.08
16 8 0.12
17 9 0.14
18 4 0.06
19 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (14 bp):
TTAATGATTTGATA
Found at i:673750 original size:25 final size:25
Alignment explanation
Indices: 673709--673756 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
673699 ATTAATATTT
*
673709 AATGATTTGATATTAATGATTTAGA
1 AATGATTTGATAGTAATGATTTAGA
673734 AATGATTTGATAGTAATGATTTA
1 AATGATTTGATAGTAATGATTTA
673757 CGACTTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (25 bp):
AATGATTTGATAGTAATGATTTAGA
Found at i:675989 original size:15 final size:14
Alignment explanation
Indices: 675966--675996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
675956 TACAACACTA
675966 AACTTTAATATAAT
1 AACTTTAATATAAT
675980 AACTTATAATATAAT
1 AACTT-TAATATAAT
675995 AA
1 AA
675997 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:676004 original size:16 final size:16
Alignment explanation
Indices: 675971--676017 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
675961 CACTAAACTT
*
675971 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
675986 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
676002 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
676018 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:676342 original size:21 final size:22
Alignment explanation
Indices: 676318--676358 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
676308 TTTATGTATA
*
676318 ATATAA-CTTAAACTAACAATC
1 ATATAACCCTAAACTAACAATC
676339 ATATAACCCTAAACTAACAA
1 ATATAACCCTAAACTAACAA
676359 ACTAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (22 bp):
ATATAACCCTAAACTAACAATC
Found at i:676548 original size:26 final size:26
Alignment explanation
Indices: 676502--676585 Score: 125
Period size: 26 Copynumber: 3.3 Consensus size: 26
676492 CCATTTCTTT
* *
676502 CTTTC-TCGGCTGCAATTTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
*
676527 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
*
676553 CTTTCTTCAGTTGCAATCTCTTCTCC
1 CTTTCTTCAGCTGCAATCTCTTCTCC
676579 CTTTCTT
1 CTTTCTT
676586 TCTTTTATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
25 5 0.09
26 49 0.91
ACGTcount: A:0.08, C:0.36, G:0.08, T:0.48
Consensus pattern (26 bp):
CTTTCTTCAGCTGCAATCTCTTCTCC
Found at i:677259 original size:32 final size:31
Alignment explanation
Indices: 677193--677294 Score: 138
Period size: 32 Copynumber: 3.3 Consensus size: 31
677183 CTACAAGGTC
* *
677193 GTGCATGGCGACCT-TG-TAGGTCGCT-GGGA
1 GTGCATGGCGACCTGTGTTGGGT-GTTGGGGA
677222 GTGCATGGCGACCTGTGTTGGGGTGTTGGGGA
1 GTGCATGGCGACCTGTGTT-GGGTGTTGGGGA
677254 GTGCATGGCGACCTGTGTTGGGTGTTGGGGA
1 GTGCATGGCGACCTGTGTTGGGTGTTGGGGA
677285 CGTGCATGGC
1 -GTGCATGGC
677295 ACATGCAGAC
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.21
30 2 0.03
31 15 0.23
32 35 0.53
ACGTcount: A:0.11, C:0.17, G:0.46, T:0.26
Consensus pattern (31 bp):
GTGCATGGCGACCTGTGTTGGGTGTTGGGGA
Found at i:677368 original size:42 final size:42
Alignment explanation
Indices: 677321--677404 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
677311 TATCTCTGTG
*
677321 CAGCTCATCGGGAAGCCATGGCGACGTAGTAGGTCGCCCGGA
1 CAGCTCACCGGGAAGCCATGGCGACGTAGTAGGTCGCCCGGA
*
677363 CAGCTCGCCGGGAAGCCATGGCGACGTAGTAGGTCGCCCGGA
1 CAGCTCACCGGGAAGCCATGGCGACGTAGTAGGTCGCCCGGA
677405 AGGCATGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.30, G:0.37, T:0.13
Consensus pattern (42 bp):
CAGCTCACCGGGAAGCCATGGCGACGTAGTAGGTCGCCCGGA
Found at i:679841 original size:18 final size:18
Alignment explanation
Indices: 679818--679854 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
679808 TTGAGAAAGA
679818 TTAACGAAATAAAATCAG
1 TTAACGAAATAAAATCAG
679836 TTAACGAAATAAAATCAG
1 TTAACGAAATAAAATCAG
679854 T
1 T
679855 GTCGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
TTAACGAAATAAAATCAG
Found at i:681104 original size:20 final size:21
Alignment explanation
Indices: 681079--681130 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
681069 TTTTCCCAAT
*
681079 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
681099 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
681120 TCGCAATGCGA
1 TCGCAATGCGA
681131 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:681144 original size:20 final size:20
Alignment explanation
Indices: 681119--681172 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
681109 AATTGGGAAA
681119 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
681139 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
681159 ATCGCAATGCGATA
1 ATCGCAATGCGATA
681173 ATACAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:681184 original size:41 final size:41
Alignment explanation
Indices: 681139--681233 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
681129 GATACTGACT
* *
681139 ATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTAACTATCGCAACGCGATAATACAAA
* * * *
681180 ATCGCAACGAGATACTAACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTAACTATCGCAACGCGATAATACAAA
*
681221 ATCGCAATACGAT
1 ATCGCAATGCGAT
681234 TTTCAAAGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGATACTAACTATCGCAACGCGATAATACAAA
Found at i:681429 original size:22 final size:22
Alignment explanation
Indices: 681401--681444 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
681391 CACTCTCTCA
681401 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
681423 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
681445 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:681761 original size:20 final size:20
Alignment explanation
Indices: 681708--681765 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
681698 CGATTCTCTC
**
681708 GTTGCGATAGTCAAATTCGT
1 GTTGCGATAGTCATTTTCGT
681728 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
681748 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
681766 AGAAACTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:681956 original size:25 final size:24
Alignment explanation
Indices: 681902--681956 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
681892 TGTTTATTAT
* *
681902 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
681926 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
681952 TGTTT
1 TGTTT
681957 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:683106 original size:18 final size:18
Alignment explanation
Indices: 683085--683129 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
683075 TCCACTTCGG
683085 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCGCCCA
*
683103 GAGCTATCACCTCGCCCA
1 GAGCCATCACCTCGCCCA
683121 GAGCCATCA
1 GAGCCATCA
683130 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.44, G:0.18, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCGCCCA
Found at i:683665 original size:19 final size:20
Alignment explanation
Indices: 683622--683666 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
683612 CACAACACGA
683622 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
683642 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
683661 AAATGA
1 AAATGA
683667 AAATCGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:683672 original size:19 final size:19
Alignment explanation
Indices: 683650--683746 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
683640 GGAAATGGCT
683650 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
683669 ATCG-AA-ACG--A-CAAA
1 ATCGCAATGCGAAATGAAA
683683 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
683702 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
**
683716 ATCGCAACACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
683735 ATCGCAATGCGA
1 ATCGCAATGCGA
683747 TTTGTGTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
14 17 0.28
15 4 0.07
16 4 0.07
17 4 0.07
18 4 0.07
19 27 0.45
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:683718 original size:14 final size:14
Alignment explanation
Indices: 683666--683723 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
683656 ATGCGAAATG
*
683666 AAAATCGAAACGAC
1 AAAATCGCAACGAC
*
683680 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
683699 AAAATCGCAACGAC
1 AAAATCGCAACGAC
683713 AAAATCGCAAC
1 AAAATCGCAAC
683724 ACGAAATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.52, C:0.22, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:683739 original size:33 final size:33
Alignment explanation
Indices: 683650--683741 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
683640 GGAAATGGCT
*
683650 ATCGCAATGCGAAATGAAAATCGAAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
683683 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
**
683716 ATCGCAACACGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
683742 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:683777 original size:14 final size:14
Alignment explanation
Indices: 683758--683848 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
683748 TTGTGTTTCG
683758 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
683772 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
683788 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
* *
683804 CATTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
683821 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
683837 CGTTGCGATTTT
1 CGTTGCGATTTT
683849 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 27 0.44
15 3 0.05
16 11 0.18
17 3 0.05
18 12 0.19
19 6 0.10
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:683822 original size:33 final size:33
Alignment explanation
Indices: 683753--683864 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
683743 GCGATTTGTG
*
683753 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
683785 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
683818 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
683851 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
683865 AGCCATTTCC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 25 0.33
33 51 0.67
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:683883 original size:20 final size:19
Alignment explanation
Indices: 683849--683904 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
683839 TTGCGATTTT
*
683849 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
683868 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
683888 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
683905 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:685772 original size:14 final size:14
Alignment explanation
Indices: 685753--685788 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
685743 ATTGTTTAAT
685753 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
685767 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
685781 TGATTTGT
1 TGATTTGT
685789 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:685934 original size:14 final size:16
Alignment explanation
Indices: 685915--685987 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 16
685905 GAAACTGACT
685915 ATCGCAACG-A-GAAA
1 ATCGCAACGAATGAAA
685929 ATCGCAATACGAAATGAAA
1 ATCGC-A-ACG-AATGAAA
685948 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG-AATGAAA
685967 ATCGCAACG-A-GAAA
1 ATCGCAACGAATGAAA
685981 ATCGCAA
1 ATCGCAA
685988 TGCTATTTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
14 16 0.31
15 2 0.04
16 3 0.06
17 3 0.06
18 2 0.04
19 26 0.50
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (16 bp):
ATCGCAACGAATGAAA
Found at i:685949 original size:19 final size:19
Alignment explanation
Indices: 685925--685973 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
685915 ATCGCAACGA
685925 GAAAATCGCAATACGAAAT
1 GAAAATCGCAATACGAAAT
*
685944 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATACGAAAT
685963 GAAAATCGCAA
1 GAAAATCGCAA
685974 CGAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATACGAAAT
Found at i:685980 original size:19 final size:18
Alignment explanation
Indices: 685925--685980 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
685915 ATCGCAACGA
*
685925 GAAAATCGCAATACGAAAT
1 GAAAATCGCAAGA-GAAAT
*
685944 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GAGAAAT
685963 GAAAATCGCAACGAGAAA
1 GAAAATCGCAA-GAGAAA
685981 ATCGCAATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.52, C:0.16, G:0.20, T:0.12
Consensus pattern (18 bp):
GAAAATCGCAAGAGAAAT
Found at i:686036 original size:20 final size:20
Alignment explanation
Indices: 686019--686107 Score: 99
Period size: 20 Copynumber: 4.4 Consensus size: 20
686009 CGATTTTCTA
686019 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
686039 GTTGCGATTTTTTCA-TTTCGA
1 GTTGCGA--TAGCCATTTTCGC
* *
686060 ATTGCGATAGCCAGTTTCGC
1 GTTGCGATAGCCATTTTCGC
686080 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
686100 GTTGCGAT
1 GTTGCGAT
686108 TTCCCCGTTG
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.05
20 38 0.69
21 11 0.20
22 3 0.05
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:686335 original size:20 final size:20
Alignment explanation
Indices: 686310--686401 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
686300 TTGAAGATGA
686310 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
686330 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
686350 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
686371 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
686391 TTGCGATTTTC
1 TTGCGATTTTC
686402 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:687250 original size:24 final size:24
Alignment explanation
Indices: 687223--687276 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
687213 GTATTCGAAA
*
687223 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
687247 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
687271 TTTGAT
1 TTTGAT
687277 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:687468 original size:12 final size:12
Alignment explanation
Indices: 687451--687475 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
687441 ATATAATCCT
687451 GAAGAAGAAAAA
1 GAAGAAGAAAAA
687463 GAAGAAGAAAAA
1 GAAGAAGAAAAA
687475 G
1 G
687476 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:689809 original size:33 final size:33
Alignment explanation
Indices: 689767--689893 Score: 177
Period size: 33 Copynumber: 3.8 Consensus size: 33
689757 AAAAATTACT
689767 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
689800 ATCGCAATGCGAAATGAAAATCACAAC-ACTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGA
* *
689832 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
689866 ATCGCAATGCGAAATGAAAATTGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
689894 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
32 2 0.02
33 78 0.95
34 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:689900 original size:66 final size:66
Alignment explanation
Indices: 689768--689900 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
689758 AAAATTACTA
*
689768 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACACTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACACGAAT
689833 T
66 T
* ** *
689834 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATTGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACACGAAT
689899 T
66 T
689900 T
1 T
689901 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACACGAAT
T
Found at i:690075 original size:14 final size:14
Alignment explanation
Indices: 690056--690092 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
690046 CATCAATTAA
690056 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
690070 ACAAATCACCTTTT
1 ACAAATCAACTTTT
690084 ACAAATCAA
1 ACAAATCAA
690093 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:691515 original size:21 final size:21
Alignment explanation
Indices: 691449--691515 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
691439 ATGAATCGGG
*
691449 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
691469 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
691491 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
691512 CTCT
1 CTCT
691516 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:691534 original size:42 final size:41
Alignment explanation
Indices: 691449--691567 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 41
691439 ATGAATCGGG
* * * *
691449 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
691491 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
691533 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGA
691568 AAGGCGAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.06
42 54 0.84
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:691957 original size:78 final size:79
Alignment explanation
Indices: 691808--691960 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 79
691798 AAGACAAAAC
* *
691808 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTAGTAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGCAGAATTAGAAGCAACCGAA
691873 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
*
691890 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATT-GAAAGCAACCGAATA
1 AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTAG-AAGCAACCGAATA
691953 AATTTACT
65 AATTTACT
691961 AAGCAATCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
77 1 0.01
78 39 0.58
82 27 0.40
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGAATTAGAAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:693733 original size:33 final size:33
Alignment explanation
Indices: 693672--693768 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
693662 ACGAGATAAT
* * *
693672 GAGAATTGCAACGCGGAAAT-AACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAA-AATCGCAAAGA
693706 GAGAATCGCAACGCGAAATGAAAATCGCAAAGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAAAGA
693739 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
693769 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
33 44 0.75
34 15 0.25
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAAAGA
Found at i:693791 original size:19 final size:19
Alignment explanation
Indices: 693769--693816 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
693759 AAAATCGCAA
*
693769 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
693788 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
693808 TGCGATTTT
1 TGCGATTTT
693817 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:694364 original size:20 final size:20
Alignment explanation
Indices: 694335--694387 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
694325 GCGCTATGTA
*
694335 AATCGCGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
694355 AATCGTGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
*
694375 TATC-TCGTTGCGA
1 AATCGT-GTTGCGA
694388 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGTGTTGCGAAAGTCAG
Found at i:694421 original size:20 final size:20
Alignment explanation
Indices: 694396--694449 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
694386 GATTTTGTAT
694396 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
694416 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
694436 TATCGCATTGCGAT
1 TATCGCATTGCGAT
694450 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:694468 original size:61 final size:61
Alignment explanation
Indices: 694336--694470 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
694326 CGCTATGTAA
* * ** * * ** *
694336 ATCGCGTTGCGAAAGTCAGAATCGTGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
694397 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
694459 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
694471 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:694560 original size:21 final size:21
Alignment explanation
Indices: 694520--694560 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
694510 ACTGTAGACC
** *
694520 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
694541 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
694561 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:707164 original size:182 final size:182
Alignment explanation
Indices: 706852--707752 Score: 1320
Period size: 182 Copynumber: 5.0 Consensus size: 182
706842 TAAAAAATAT
* *
706852 GACAAAACCGGTAAAGCAG-TA-TCGAATATATTGAAAGTATCGATACTTTAATATAAGTATCGA
1 GACAAAACCGGTAAAGC-GCTACT-GGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
* *
706915 TACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATG
64 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATG
*
706980 TATCGATCCACACTGATATAACAGGTAAAAGTATGACAAAACCGGTCTCTAAAG
129 TATCGATCCACACTGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAG
*
707034 GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGATA
1 GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
707099 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTAGATATTTTATAAAAATGTA
66 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATGTA
* * * *
707164 TCGATCCATAACT-ATATAATAGG-AAAAATATGACAAAATCGGTCTATAAAG
131 TCGATCCA-CACTGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAG
*
707215 GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGTCG-CGTTACTTTAATATAAGTATCGAC
1 GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGT-GTCGATACTTTAATATAAGTATCGAC
* *
707279 ACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGT
65 ACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATGT
* * *
707344 ATCTATCCACAAC-GATATAACAGGTAACAATATGACAAAACCGGTGTCTAAAG
130 ATCGATCCAC-ACTGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAG
* * * *
707397 GATAAAATCGGTATATAGCG--ACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGA
1 GACAAAACCGGTA-A-AGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGA
707460 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATG
64 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATG
*
707525 TATCGATCCACGA-TGATATAACAGGTAAAAATATGACAAAGCCGGTCTCTAAAG
129 TATCGATCCAC-ACTGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAG
* * * *** *
707579 GACAAAACCGGTATAGAGCGACCAAATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
* *
707644 CTTAT-TGAATTTAAAAGAGAAGCAGTTTTAGCTCCTATAAAGTGTCGATATTTTATAAAAATGT
66 CTT-TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATGT
* * *
707708 ATCGATTCATAAC-GATATAACATGTAAAAATATGACAAAACCGGT
130 ATCGATCCA-CACTGATATAACAGGTAAAAATATGACAAAACCGGT
707753 AAAGCGCTAC
Statistics
Matches: 654, Mismatches: 49, Indels: 32
0.89 0.07 0.04
Matches are distributed among these distances:
180 3 0.00
181 167 0.26
182 474 0.72
183 6 0.01
184 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (182 bp):
GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATGTA
TCGATCCACACTGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAG
Found at i:707337 original size:363 final size:361
Alignment explanation
Indices: 706852--707752 Score: 1330
Period size: 363 Copynumber: 2.5 Consensus size: 361
706842 TAAAAAATAT
*
706852 GACAAAACCGGTAAAGCAG-TA-TCGAATATATTGAAAGTATCGATACTTTAATATAAGTATCGA
1 GACAAAACCGGTAAAGC-GCTACT-GAATATATTGAAAGT-GCGATACTTTAATATAAGTATCGA
*
706915 TACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATG
63 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATG
706980 TATCGATCCACACTGATATAACAGGTAAAAGTATGACAAAACCGGTCTCTAAAGGACAAAACCGG
128 TATCGATCCACAC-GATATAACAGGTAAAA-TATGACAAAACCGGTCTCTAAAGGACAAAACCGG
* * *
707045 TA-A-AGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGATACTTTGTGAA
191 TATATAGCG--ACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTGTGAA
*
707108 TTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTAGATATTTTATAAAAATGTATCGATCCAT
254 TTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTAGATATTTTATAAAAATGTATCGATCCAC
* *
707173 AACT-ATATAATAGG-AAAAATATGACAAAATCGGTCTATAAAG
319 AA-TGATATAACAGGTAAAAATATGACAAAACCGGTCTATAAAG
* *
707215 GACAAAACCGGTAAAGCGCTACTGGATATATTGAAAGTCGCGTTACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGCGCTACTGAATATATTGAAAGT-GCGATACTTTAATATAAGTATCGACA
*
707280 CTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGTA
65 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGTA
* * * *
707345 TCTATCCACAACGATATAACAGGTAACAATATGACAAAACCGGTGTCTAAAGGATAAAATCGGTA
130 TCGATCCAC-ACGATATAACAGGTAA-AATATGACAAAACCGGTCTCTAAAGGACAAAACCGGTA
707410 TATAGCGACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTGTGAATTTA
193 TATAGCGACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTGTGAATTTA
* * *
707475 AAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTATAACAATGTATCGATCCACGATG
258 AAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTAGATATTTTATAAAAATGTATCGATCCACAATG
* *
707540 ATATAACAGGTAAAAATATGACAAAGCCGGTCTCTAAAG
323 ATATAACAGGTAAAAATATGACAAAACCGGTCTATAAAG
* * * ** *
707579 GACAAAACCGGTATAGAGCGACCAAATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGCGCTACTGAATATATTGAAAGTG-CGATACTTTAATATAAGTATCGACA
* * *
707644 CTTAT-TGAATTTAAAAGAGAAGCAGTTTTAGCTCCTATAAAGTGTCGATATTTTATAAAAATGT
65 CTT-TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGT
* * *
707708 ATCGATTCATAACGATATAACATGTAAAAATATGACAAAACCGGT
129 ATCGATCCA-CACGATATAACAGGT-AAAATATGACAAAACCGGT
707753 AAAGCGCTAC
Statistics
Matches: 489, Mismatches: 37, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
362 2 0.00
363 299 0.61
364 181 0.37
365 7 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (361 bp):
GACAAAACCGGTAAAGCGCTACTGAATATATTGAAAGTGCGATACTTTAATATAAGTATCGACAC
TTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGTAT
CGATCCACACGATATAACAGGTAAAATATGACAAAACCGGTCTCTAAAGGACAAAACCGGTATAT
AGCGACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTGTGAATTTAAAA
GAGAAGCAGTTTTAGCGCCTATAAAGTGTAGATATTTTATAAAAATGTATCGATCCACAATGATA
TAACAGGTAAAAATATGACAAAACCGGTCTATAAAG
Found at i:709789 original size:19 final size:22
Alignment explanation
Indices: 709741--709795 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
709731 TTTTTGTTTT
709741 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
709764 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
709784 TTTTATTATAAA
1 TTTTA-TATAAA
709796 TGCATGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:710195 original size:21 final size:21
Alignment explanation
Indices: 710171--710214 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
710161 AAGATAATCA
* *
710171 AGAGTTGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACCTGAG
*
710192 AGAGTCGAAGAGACACCTGAG
1 AGAGTCGAAGAGAAACCTGAG
710213 AG
1 AG
710215 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACCTGAG
Found at i:710290 original size:33 final size:33
Alignment explanation
Indices: 710248--710314 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
710238 AAATAGATGG
*
710248 AGTGGTGAAAGGAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
710281 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
710314 A
1 A
710315 CTTAAGATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.49, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
Found at i:710520 original size:18 final size:18
Alignment explanation
Indices: 710497--710535 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
710487 GAAAAAATAT
710497 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
710515 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
710533 GAA
1 GAA
710536 ATAAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:712112 original size:19 final size:19
Alignment explanation
Indices: 712088--712136 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
712078 AATATAGGGT
712088 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
712107 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
712126 TAATTTTGTAT
1 TAATTTTGTAT
712137 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:713556 original size:199 final size:199
Alignment explanation
Indices: 712487--713632 Score: 1496
Period size: 199 Copynumber: 5.8 Consensus size: 199
712477 GTAAACTTAT
* *
712487 GTGTCGATACATTTATAAAAAGTATCGAGCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* ** * *
712552 GGTAATTTTGTAATATAACCAGTAT-AA-ATACCGGA-TTTATGTGAGAATAGGTCTACATAATG
66 GGTAAATTTACAATGTAACCGGTATAAATATACC-GATTTTATGTGAGAATAGGTCTACATAATG
* * * * *
712614 TATCAACACTTTCTCATTTTGTGTCGATGCTTTTTGTCCAGAATGAATGCCCAAAATGATGAACG
130 TATCGACACTTT-TTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
**
712679 CAT-TT
194 CATAAA
* * *
712684 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
712749 GGTAAATTTACAATGTAACCGGTATAACTATACCGATTTTATGAGAAAATAGGCCAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
** * * * * * *
712814 ATCGACA-TGTATGGAATTTGTGTCGATACTGTTTATCCAGAAGGAATGCCCAAAAGGGTGCACC
131 ATCGACACT-T-TTTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
*
712878 CACAAA
194 CATAAA
* *
712884 GTGTCGATACATTTAATAAAAAATATCGATCCCAAAAACATCGAAAACC-CTAATTATAATGTAA
1 GTGTCGATACATTT-ATAAAAAGTATCGATCCCAAAAACATCG-AAACCGATAATTATAATGTAA
*
712948 TATGT-AA--T---A--TAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAAT
* * * * *
713005 GTGTCGACAGTTTTTAATTTTGTCTCGATACTTTTTATCCAGAATGAATGCCCAAAATGGTAAAC
129 GTATCGACACTTTTTAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
713070 GCATAAA
193 GCATAAA
* *
713077 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAATTTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
713142 GGTAAATTTACAATCTAATCGGTATAAATATACCGATTTTATGTGAGAATAGGTTTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* *
713207 GTCGACACTTTTGAATTTGTGTCGATACTTTTTTGTCCAGAATGAATGCCCAAAATGGTGAA--C
131 ATCGACACTTTTTAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
*
713270 ATAGA
195 ATAAA
* * *
713275 GTGTCGATACATATATAAATAGTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
*
713340 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* **
713405 GTCGACACTTTTTAATTTGTGTCGATACTTTTTGTCCAGAATGAATATCCAAAATGGTGAACGCA
131 ATCGACACTTTTTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
713470 TAAA
196 TAAA
* * *
713474 GTGTCGATACATATATAAAAAGTATCGATCACAAAAACATTGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * **
713539 GGTAAATTTACAATGTAATCGGTATAAATTTACCGTTTTTATGAGAAAATAGGTGAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
* * *
713604 ATTGACACATTTTAGATTTGTATCGATAC
131 ATCGACACTTTTTA-ATTTGTGTCGATAC
713633 AATTTTAAAT
Statistics
Matches: 836, Mismatches: 90, Indels: 43
0.86 0.09 0.04
Matches are distributed among these distances:
191 5 0.01
192 46 0.06
193 114 0.14
194 1 0.00
195 2 0.00
197 113 0.14
198 159 0.19
199 226 0.27
200 122 0.15
201 43 0.05
202 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
TAAA
Found at i:714601 original size:298 final size:298
Alignment explanation
Indices: 714065--714664 Score: 1164
Period size: 298 Copynumber: 2.0 Consensus size: 298
714055 ATTCGTCCCG
714065 AACGTGTCATTGACCTAGGTTTCTTGTTTTATGATAAATATGCATTTAGTTTTAAATCCACATTT
1 AACGTGTCATTGACCTAGGTTTCTTGTTTTATGATAAATATGCATTTAGTTTTAAATCCACATTT
714130 ACATCTTGGGGTTGACTTGAATTCCTTGGTGTAGAACCAAAATATTACCCCAACCTAATTAGAGT
66 ACATCTTGGGGTTGACTTGAATTCCTTGGTGTAGAACCAAAATATTACCCCAACCTAATTAGAGT
* * *
714195 TTTCTACAACAATGCTTCCTTACAGCACGAGCCTAATAAGAGTAATATAATATGAATTAATACCC
131 CTTCTACAACAATGCTTCCTTACAGCACAAGCCTAATAAGAGTAATATAATAGGAATTAATACCC
714260 ATGTCATGGGGAAGGATATATATATCTCCGAAAACTATTGCGGAGGGTCTAGGTGTCGAGAATAA
196 ATGTCATGGGGAAGGATATATATATCTCCGAAAACTATTGCGGAGGGTCTAGGTGTCGAGAATAA
*
714325 AGGGGATTCAGATGAAAATAATATAGATAGTATAATAC
261 AGGGGATTCAAATGAAAATAATATAGATAGTATAATAC
714363 AACGTGTCATTGACCTAGGTTTCTTGTTTTATGATAAATATGCATTTAGTTTTAAATCCACATTT
1 AACGTGTCATTGACCTAGGTTTCTTGTTTTATGATAAATATGCATTTAGTTTTAAATCCACATTT
714428 ACATCTTGGGGTTGACTTGAATTCCTTGGTGTAGAACCAAAATATTACCCCAACCTAATTAGAGT
66 ACATCTTGGGGTTGACTTGAATTCCTTGGTGTAGAACCAAAATATTACCCCAACCTAATTAGAGT
714493 CTTCTACAACAATGCTTCCTTACAGCACAAGCCTAATAAGAGTAATATAATAGGAATTAATACCC
131 CTTCTACAACAATGCTTCCTTACAGCACAAGCCTAATAAGAGTAATATAATAGGAATTAATACCC
714558 ATGTCATGGGGAAGGATATATATATCTCCGAAAACTATTGCGGAGGGTCTAGGTGTCGAGAATAA
196 ATGTCATGGGGAAGGATATATATATCTCCGAAAACTATTGCGGAGGGTCTAGGTGTCGAGAATAA
714623 AGGGGATTCAAATGAAAATAATATAGATAGTATAATAC
261 AGGGGATTCAAATGAAAATAATATAGATAGTATAATAC
714661 AACG
1 AACG
714665 GGTTGTTAGA
Statistics
Matches: 298, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
298 298 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (298 bp):
AACGTGTCATTGACCTAGGTTTCTTGTTTTATGATAAATATGCATTTAGTTTTAAATCCACATTT
ACATCTTGGGGTTGACTTGAATTCCTTGGTGTAGAACCAAAATATTACCCCAACCTAATTAGAGT
CTTCTACAACAATGCTTCCTTACAGCACAAGCCTAATAAGAGTAATATAATAGGAATTAATACCC
ATGTCATGGGGAAGGATATATATATCTCCGAAAACTATTGCGGAGGGTCTAGGTGTCGAGAATAA
AGGGGATTCAAATGAAAATAATATAGATAGTATAATAC
Found at i:715419 original size:6 final size:6
Alignment explanation
Indices: 715367--715418 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
715357 CAAGAGGTAA
* * *
715367 ATGAAG ATGAAG ATGACG ATGAAG ATGAAG ATGACG ATGAAG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
715415 ATGA
1 ATGA
715419 TTATGATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.44, C:0.04, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:715424 original size:9 final size:9
Alignment explanation
Indices: 715367--715434 Score: 55
Period size: 9 Copynumber: 7.6 Consensus size: 9
715357 CAAGAGGTAA
*
715367 ATGAAGATG
1 ATGATGATG
* *
715376 AAGATGACG
1 ATGATGATG
*
715385 ATGAAGATG
1 ATGATGATG
* *
715394 AAGATGACG
1 ATGATGATG
*
715403 ATGAAGATG
1 ATGATGATG
*
715412 ATGATGATT
1 ATGATGATG
*
715421 ATGATTATG
1 ATGATGATG
715430 ATGAT
1 ATGAT
715435 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.26
Consensus pattern (9 bp):
ATGATGATG
Found at i:715424 original size:18 final size:18
Alignment explanation
Indices: 715367--715418 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
715357 CAAGAGGTAA
715367 ATGAAGATGAAGATGACG
1 ATGAAGATGAAGATGACG
715385 ATGAAGATGAAGATGACG
1 ATGAAGATGAAGATGACG
*
715403 ATGAAGATGATGATGA
1 ATGAAGATGAAGATGA
715419 TTATGATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.04, G:0.33, T:0.19
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:716771 original size:24 final size:24
Alignment explanation
Indices: 716739--716787 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
716729 TTGCATATGT
* *
716739 AATTGGAGTTTGAATTTAAATTTC
1 AATTGGAGTTTCAATATAAATTTC
*
716763 AATTTGAGTTTCAATATAAATTTC
1 AATTGGAGTTTCAATATAAATTTC
716787 A
1 A
716788 GCTCCAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (24 bp):
AATTGGAGTTTCAATATAAATTTC
Found at i:717871 original size:200 final size:200
Alignment explanation
Indices: 717156--718326 Score: 1551
Period size: 200 Copynumber: 5.8 Consensus size: 200
717146 TAAAGTTTCC
* *
717156 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * *
717221 ATAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTTTGAGAAAATAGAT-ATAC
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGA-AC
* * * * * * * * *
717285 ATAATGTATCAAAACTTGTGGAATTTGTGTCGATACTTTTGGTCCACAAGGAATGCCCAAAAAGG
130 ATAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCC-AAAATG
*
717350 GTGCAC-
194 GTGAACG
* * * * *
717356 CTATAAAATGTCAATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACAAATAATTATAA
1 C-ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAA
** * * *
717421 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACTAGTTTTATGTGAGAATAGGTGTAC
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAAC
* * * * * * *
717486 ATAATGTGTCGATACTTTTGAATTTTGTATCGATATTTTTTATCCATAATGAATGCCAAAAATGG
130 ATAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGG
717551 TGAACG
195 TGAACG
* *
717557 CATAAAGTGTTGATACATTTATAAAAAAGTATTGATCCCAAAAACATCGAAACCAATAATTATAA
1 CATAAAGTGTCGATACATTTAT-AAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAA
* * *
717622 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGATTTTATGATAAAATAGGGGAAC
65 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAAC
* * *
717687 ATAATGTGTCGACGCTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGG
130 ATAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGG
717752 TGAACG
195 TGAACG
* *
717758 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCTCAAAAACATCGAAACCAATAATTATATT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * *
717823 GTAATAGGTAAATTTACAATGTAACCAATATAAATATATCGGTTTTATGAGAAAATAGGGGAACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* * * *
717888 TAATGTGTTGACACTTTTTAAATTTGTGTTGATACTTTTTGTCCAAAATGAATGTCCAAAATGGT
131 TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGT
*
717953 GAATG
196 GAACG
* * *
717958 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCTAAAATCATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * *
718023 GTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGAGAAAATATGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* * * * * * *
718088 TAACGTATCAACAAGTTTT-AGATTTGTGTCGATATTTTTTGTCCAAAATGAATG-CCAAAAGGG
131 TAATGTGTCGAC-ACTTTTGAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGG
*
718151 TTGCAA-T
195 -TG-AACG
* * * *
718158 CATAAAGTGTCGATATATTTTTAAAAAGAATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
* * * * **
718223 GTAATAGGTAAATTTACAATGTAACCAGTTTAAATATACCAGTTTTATGATAGAATAGGTGTTCA
66 GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
* * *
718288 TAATGTGTCGACACTTTTGGATTTTGTGTCGATGCTTTT
131 TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTT
718327 AAATGACGCG
Statistics
Matches: 853, Mismatches: 110, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
199 13 0.02
200 494 0.58
201 346 0.41
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (200 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTGAACA
TAATGTGTCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGT
GAACG
Found at i:722880 original size:199 final size:197
Alignment explanation
Indices: 722427--723134 Score: 779
Period size: 205 Copynumber: 3.5 Consensus size: 197
722417 ACCTAAATAT
* * *
722427 GTGTCGATACATTT-TCTAAAAGTACCGA-CCCAAAAAATATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * *
722490 TAGGTAAATTAACAATGTAACCGGTATAAATATACCAG-TTAATTAGAAAATAGGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCATCATAAT
*
722554 GTATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGC
129 GTATCGACACTT-T-TAAATTTGTGTCGATACTT-TTGTCCAGAATGAAT--CTAAACGAGGTGC
*
722618 ACACATAAA
189 ACGCATAAA
* *
722627 GTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATTGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * * * *
722691 ATGTAAATTTATAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATCATAAAG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCATCATAATG
* *
722756 TATCGACACTTATTAAATTTGTATCGATACATTTTGTCCATAATGAATACTAAACG-GGTGCACG
130 TATCGACACTT-TTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAAT-CTAAACGAGGTGCACG
722820 CATAAA
192 CATAAA
* * * *
722826 GTCTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTGATT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT-AAT
* * * *
722891 A-GTAAATTTACAATATACCCGATAGAAATATACCAGTTTTATGAAGAAGAAAAAATAGGTC-TA
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTAT---G-AG--AAAATAGGTCAT-
* * * * * *
722954 AATAATGTATCGACACTCTTTAAGTTTGTGTCGATACTTTTTTTCAGAATGAATGTCCAACGAGG
123 CATAATGTATCGACACT-TTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATCT-AAACGAGG
723019 TGCACGCATAAA
186 TGCACGCATAAA
* * * * * *
723031 GTGTCAATATATTTA--AAATTGAATCGATCCAAAAAAACATCGAAACCGATAATTATAATGTAG
1 GTGTCGATACATTTATTAAA-AGTATCGATCC-CAAAAACATCGAAACCGATAATTATAATGTAA
* *
723094 TAGGTAAATTTATAATGTTACCGGTATAAATATACCAGTTT
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTT
723135 ACTTATAAAA
Statistics
Matches: 431, Mismatches: 56, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
198 3 0.01
199 99 0.23
200 92 0.21
201 70 0.16
202 3 0.01
203 6 0.01
204 31 0.07
205 126 0.29
206 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCATCATAATGT
ATCGACACTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATCTAAACGAGGTGCACGCATA
AA
Found at i:723260 original size:21 final size:21
Alignment explanation
Indices: 723234--723275 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
723224 AATGCCTATT
*
723234 TTATTATATAAACGCTACCTA
1 TTATTATATAAACGATACCTA
*
723255 TTATTATATAAGCGATACCTA
1 TTATTATATAAACGATACCTA
723276 ATATGTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (21 bp):
TTATTATATAAACGATACCTA
Found at i:723278 original size:85 final size:86
Alignment explanation
Indices: 723152--723312 Score: 225
Period size: 85 Copynumber: 1.9 Consensus size: 86
723142 AAATATGTCA
* * * * *
723152 ATATAAACGCTATCTATTACATTATATAACCGCTACTTAATATGTTATTGTATTTAATAATATTT
1 ATATAAACGCTACCTATTA-ATTATATAACCGATACCTAATATGTTATTATAATTAATAATATTT
* *
723217 TTGGTTAAATGCCTATTTTATT
65 CTAGTTAAATGCCTATTTTATT
* *
723239 ATATAAACGCTACCTATT-ATTATATAAGCGATACCTAATATGTTATTATAATTAATAATGTTTC
1 ATATAAACGCTACCTATTAATTATATAACCGATACCTAATATGTTATTATAATTAATAATATTTC
723303 TAGTTAAATG
66 TAGTTAAATG
723313 ATATAATATA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
85 48 0.74
87 17 0.26
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (86 bp):
ATATAAACGCTACCTATTAATTATATAACCGATACCTAATATGTTATTATAATTAATAATATTTC
TAGTTAAATGCCTATTTTATT
Found at i:723361 original size:16 final size:16
Alignment explanation
Indices: 723321--723355 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
723311 TGATATAATA
723321 TAACCGATCTAAATTT
1 TAACCGATCTAAATTT
723337 TAACCGATCTAAATTT
1 TAACCGATCTAAATTT
723353 TAA
1 TAA
723356 TTGATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (16 bp):
TAACCGATCTAAATTT
Found at i:744986 original size:34 final size:35
Alignment explanation
Indices: 744941--745008 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
744931 AATAAGAATT
* *
744941 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATA
1 ACAACTTCTCTCTGAT-AAAAAAGGAGAAAACAATA
744976 ACAA-TTCTCTCTTGATAAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAAGGAGAAAACAA
745009 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 7 0.24
35 19 0.66
36 3 0.10
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (35 bp):
ACAACTTCTCTCTGATAAAAAAGGAGAAAACAATA
Found at i:745532 original size:2 final size:2
Alignment explanation
Indices: 745525--745549 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
745515 TTTATAAGTC
745525 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
745550 CAAATTTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:748320 original size:16 final size:16
Alignment explanation
Indices: 748299--748329 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
748289 CTTTCACTAA
748299 AATATTTATAAAATAC
1 AATATTTATAAAATAC
748315 AATATTTATAAAATA
1 AATATTTATAAAATA
748330 TTAGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATTTATAAAATAC
Found at i:752355 original size:174 final size:174
Alignment explanation
Indices: 752065--752450 Score: 630
Period size: 174 Copynumber: 2.2 Consensus size: 174
752055 TTTGTATCGG
* * * *
752065 TACTTTTCTAAGTATATGCATCAAATTATCGATACTTTAGAAATTTAAAAGATTTGCAATAATAG
1 TACTTTTATAAGTATATGTATCATATTATCGATACTTTAGAAATTTAAAAGAATTGCAATAATAG
* *
752130 CGCCTATAAAGTATCGATACTTTAGAAACATGTATCGATACATGACAATATAACATGTTAAAATA
66 CGCCTATAAAGTATCGATACTTTAAAAACATGTATCGATACATAACAATATAACATGTTAAAATA
* * *
752195 TGACAAAACCGGTAAAAAAG-TACCGGATATGTTGAAGATATTAA
131 TCACAAAACCGGT-AAAAAGCTACCGGATACGTTGAAGATATCAA
*
752239 TACTTTTATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATAG
1 TACTTTTATAAGTATATGTATCATATTATCGATACTTTAGAAATTTAAAAGAATTGCAATAATAG
752304 CGCCTATAAAGTATCGATACTTTAAAAACATGTATCGATACATAACAATATAACATGTTAAAATA
66 CGCCTATAAAGTATCGATACTTTAAAAACATGTATCGATACATAACAATATAACATGTTAAAATA
* * *
752369 TCACAAAACCGGTAAAACGCTACCGGATACGTTGAAGGTATCGA
131 TCACAAAACCGGTAAAAAGCTACCGGATACGTTGAAGATATCAA
*
752413 TACTTTTATAAGTATATATATCATATTATCGATACTTT
1 TACTTTTATAAGTATATGTATCATATTATCGATACTTT
752451 TAAATGAAAA
Statistics
Matches: 197, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 5 0.03
174 192 0.97
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (174 bp):
TACTTTTATAAGTATATGTATCATATTATCGATACTTTAGAAATTTAAAAGAATTGCAATAATAG
CGCCTATAAAGTATCGATACTTTAAAAACATGTATCGATACATAACAATATAACATGTTAAAATA
TCACAAAACCGGTAAAAAGCTACCGGATACGTTGAAGATATCAA
Found at i:753122 original size:230 final size:230
Alignment explanation
Indices: 752757--753171 Score: 697
Period size: 230 Copynumber: 1.8 Consensus size: 230
752747 AAATAGGGAT
* * *
752757 TTTATGGGTTTGGGGTTTTCGAAGTAAAGAATCATTTGAGACCGATTACAGGTAGAAAGTGATAT
1 TTTATGGGTTTGGGGATTTCGAAGCAAAGAAGCATTTGAGACCGATTACAGGTAGAAAGTGATAT
* * *
752822 TCTAGGTAGAAAATAAATATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTAGGT
66 TATAGGTAGAAAAAAAATATCGATACTTGTATATAATATTATAGGTAGAAAATGATATTGTAGGT
* *
752887 TGTATAAATGTACCGATACTTGTAGTAGAGAGTATTTCC-ATTCGTTTGAAGGAAAACCTAGGTT
131 TGTATAAATGTACCGATACTTGTAGTAGAAAGTA-TTCCGATTCCTTTGAAGGAAAACCTAGGTT
752951 TTTTAGTATTACATTATTTGTAAATAGGGATTAGGG
195 TTTTAGTATTACATTATTTGTAAATAGGGATTAGGG
* * *
752987 TTTATGGGTTTGGGGATTTCGAAGCAAAGAAGGATTTGAGACCGATTAGAGTTAGAAAGTGATAT
1 TTTATGGGTTTGGGGATTTCGAAGCAAAGAAGCATTTGAGACCGATTACAGGTAGAAAGTGATAT
* *
753052 TATAGGTAGAAAAAAAATATTGATACTTGTATATAATATTATAGGTAGAAAATGATATTGTATGT
66 TATAGGTAGAAAAAAAATATCGATACTTGTATATAATATTATAGGTAGAAAATGATATTGTAGGT
753117 TGTATAAATGTACCGATACTTGTAGTAGAAAGTATTCCGATTCCTTTGAAGGAAA
131 TGTATAAATGTACCGATACTTGTAGTAGAAAGTATTCCGATTCCTTTGAAGGAAA
753172 CCGTTTTACT
Statistics
Matches: 171, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
229 4 0.02
230 167 0.98
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.35
Consensus pattern (230 bp):
TTTATGGGTTTGGGGATTTCGAAGCAAAGAAGCATTTGAGACCGATTACAGGTAGAAAGTGATAT
TATAGGTAGAAAAAAAATATCGATACTTGTATATAATATTATAGGTAGAAAATGATATTGTAGGT
TGTATAAATGTACCGATACTTGTAGTAGAAAGTATTCCGATTCCTTTGAAGGAAAACCTAGGTTT
TTTAGTATTACATTATTTGTAAATAGGGATTAGGG
Found at i:754050 original size:10 final size:10
Alignment explanation
Indices: 754035--754059 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
754025 AAATGTATCG
754035 ACACACGCAC
1 ACACACGCAC
754045 ACACACGCAC
1 ACACACGCAC
754055 ACACA
1 ACACA
754060 TATATTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.48, G:0.08, T:0.00
Consensus pattern (10 bp):
ACACACGCAC
Done.