Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_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: 3217407
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 10
Found at i:2407242 original size:201 final size:201
Alignment explanation
Indices: 2406897--2407291 Score: 720
Period size: 201 Copynumber: 2.0 Consensus size: 201
2406887 GTTTTATCAT
*
2406897 CAAGCAAATGAAGTAAACCTTGTTAAGTGATTATGGTGATGGAAAGGTTGTAAAATGACTTATGT
1 CAAGCAAATGAAGTAAACCTTGTTAAGTGATTATGGTGATGGAAAGGTTGTAAAATAACTTATGT
2406962 AAGTAACCTTTTTTATCTAACTTTTATTTCTAAGCCATCCTATCATTATCTTTTATTTTTTCCAT
66 AAGTAACCTTTTTTATCTAACTTTTATTTCTAAGCCATCCTATCATTATCTTTTATTTTTTCCAT
* **
2407027 TCCTACTAACTCTTTGTAGCCGACGGACAACAAGTAAAATTTACTTGAGATGGTTTTGAGTAAAA
131 TCCTACTAACTCTTTGCAGCCGACGGACAACAAGTAAAATTTACTTGAGATGGTCCTGAGTAAAA
2407092 TTTACA
196 TTTACA
*
2407098 CAAGCAAATGAAGTAAGA-CTTGTTAAGTGATTGTGGTGATGGAAAGGTTGTAAAATAACTTATG
1 CAAGCAAATGAAGTAA-ACCTTGTTAAGTGATTATGGTGATGGAAAGGTTGTAAAATAACTTATG
*
2407162 TAAGTAACCTTTTTTATCTATCTTTTATTTCTAAGCCATCCTATCATTATCTTTTATTTTTTCCA
65 TAAGTAACCTTTTTTATCTAACTTTTATTTCTAAGCCATCCTATCATTATCTTTTATTTTTTCCA
2407227 TTCCTACTAACTCTTTGCAGCCGACGGACAACAAGTAAAATTTACTTGAGATGGTCCTGAGTAAA
130 TTCCTACTAACTCTTTGCAGCCGACGGACAACAAGTAAAATTTACTTGAGATGGTCCTGAGTAAA
2407292 TTCACATAGA
Statistics
Matches: 187, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
201 186 0.99
202 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (201 bp):
CAAGCAAATGAAGTAAACCTTGTTAAGTGATTATGGTGATGGAAAGGTTGTAAAATAACTTATGT
AAGTAACCTTTTTTATCTAACTTTTATTTCTAAGCCATCCTATCATTATCTTTTATTTTTTCCAT
TCCTACTAACTCTTTGCAGCCGACGGACAACAAGTAAAATTTACTTGAGATGGTCCTGAGTAAAA
TTTACA
Found at i:2420350 original size:14 final size:14
Alignment explanation
Indices: 2420331--2420370 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
2420321 TAAGATACTA
2420331 TTTCCATCACCATC
1 TTTCCATCACCATC
2420345 TTTCCATCACCATC
1 TTTCCATCACCATC
*
2420359 -CTCCATCACCAT
1 TTTCCATCACCAT
2420371 TCACGCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:2420546 original size:15 final size:15
Alignment explanation
Indices: 2420528--2420565 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
2420518 TTGATAACAT
2420528 TTTCTT-TCTATTTCC
1 TTTCTTATC-ATTTCC
2420543 TTTCTTATCATTTCC
1 TTTCTTATCATTTCC
2420558 TTTCTTAT
1 TTTCTTAT
2420566 TCCATATTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCTTATCATTTCC
Found at i:2421549 original size:13 final size:13
Alignment explanation
Indices: 2421531--2421555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2421521 CTTGTCCTTC
2421531 TATTTTTTTGTTG
1 TATTTTTTTGTTG
2421544 TATTTTTTTGTT
1 TATTTTTTTGTT
2421556 ACACGTTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (13 bp):
TATTTTTTTGTTG
Found at i:2426055 original size:22 final size:25
Alignment explanation
Indices: 2426030--2426077 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
2426020 CATGCCATGT
2426030 ACATGA-GAG-CC-TTTGGCGCCAA
1 ACATGAGGAGACCATTTGGCGCCAA
2426052 ACATGAGGAGACCCATTTGGCGCCAA
1 ACATGAGGAGA-CCATTTGGCGCCAA
2426078 GATGAACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
25 2 0.09
26 11 0.50
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (25 bp):
ACATGAGGAGACCATTTGGCGCCAA
Found at i:2436812 original size:22 final size:21
Alignment explanation
Indices: 2436784--2436824 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2436774 GCTGCGGAAA
2436784 TGATGGTCTTGATGGATGAAGT
1 TGATGGTCTTGAT-GATGAAGT
*
2436806 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
2436825 AGGGAGATGG
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:0.24, C:0.02, G:0.37, T:0.37
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGT
Found at i:2443383 original size:16 final size:16
Alignment explanation
Indices: 2443362--2443396 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2443352 TGAAAAGTTA
2443362 TCAGTTGACCCCGAGC
1 TCAGTTGACCCCGAGC
2443378 TCAGTTGACCCCGAGC
1 TCAGTTGACCCCGAGC
2443394 TCA
1 TCA
2443397 TAGCTCAATT
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:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (16 bp):
TCAGTTGACCCCGAGC
Found at i:2466780 original size:10 final size:11
Alignment explanation
Indices: 2466752--2466786 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2466742 ATATCAAAAA
2466752 GAAGTGCAAGT
1 GAAGTGCAAGT
2466763 GAAGTGCAAGT
1 GAAGTGCAAGT
*
2466774 -TAGTGCAAGT
1 GAAGTGCAAGT
2466784 GAA
1 GAA
2466787 AGAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.37, C:0.09, G:0.34, T:0.20
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:2468226 original size:10 final size:11
Alignment explanation
Indices: 2468199--2468232 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2468189 TATCAAAAAT
2468199 AAGTGCAAGTG
1 AAGTGCAAGTG
2468210 AAGTGCAAGT-
1 AAGTGCAAGTG
*
2468220 TAGTGCAAGTG
1 AAGTGCAAGTG
2468231 AA
1 AA
2468233 AGAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (11 bp):
AAGTGCAAGTG
Found at i:2472516 original size:14 final size:15
Alignment explanation
Indices: 2472497--2472526 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2472487 ATAATCTTGC
2472497 ATTCATTA-ATCATG
1 ATTCATTACATCATG
2472511 ATTCATTACATCATG
1 ATTCATTACATCATG
2472526 A
1 A
2472527 AATGGCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTCATTACATCATG
Found at i:2478121 original size:69 final size:70
Alignment explanation
Indices: 2478009--2478149 Score: 266
Period size: 69 Copynumber: 2.0 Consensus size: 70
2477999 TGAATGCAAA
2478009 ACATTAACTACATGTAAAAAATTATAAGTATTAAAATGGATGTATTGAGAGCATCAAATTTTGTC
1 ACATTAACTACATGTAAAAAATTAT-AGTATTAAAATGGATGTATTGAGAGCATCAAATTTTGTC
2478074 CAAAAC
65 CAAAAC
2478080 ACATTAACTACATGTAAAAAATTAT-GTATTAAAATGGATGTATTGAGAGCATCAAATTTTGTCC
1 ACATTAACTACATGTAAAAAATTATAGTATTAAAATGGATGTATTGAGAGCATCAAATTTTGTCC
2478144 AAAAC
66 AAAAC
2478149 A
1 A
2478150 TTCTCATAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
69 45 0.64
71 25 0.36
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (70 bp):
ACATTAACTACATGTAAAAAATTATAGTATTAAAATGGATGTATTGAGAGCATCAAATTTTGTCC
AAAAC
Found at i:2481387 original size:22 final size:22
Alignment explanation
Indices: 2481362--2481413 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
2481352 CTAGAAATGC
*
2481362 ATGCATGGACGTAGGTTACAAT
1 ATGCATGGACGAAGGTTACAAT
* *
2481384 ATGCATGGTCGAATGTTACAAT
1 ATGCATGGACGAAGGTTACAAT
2481406 ATGCATGG
1 ATGCATGG
2481414 CCTCATGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (22 bp):
ATGCATGGACGAAGGTTACAAT
Found at i:2483759 original size:35 final size:35
Alignment explanation
Indices: 2483719--2483795 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
2483709 ATGATAATGG
*
2483719 GATGGTGATTATATAGGCATGAAATAAAGATGAAA
1 GATGGTGATGATATAGGCATGAAATAAAGATGAAA
* * * **
2483754 GATGGTGATGATATAGGCGTGATATAGAGATGGGA
1 GATGGTGATGATATAGGCATGAAATAAAGATGAAA
2483789 GATGGTG
1 GATGGTG
2483796 TAGATAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.35, T:0.26
Consensus pattern (35 bp):
GATGGTGATGATATAGGCATGAAATAAAGATGAAA
Found at i:2491897 original size:13 final size:12
Alignment explanation
Indices: 2491881--2491929 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
2491871 CTTTTTGAAC
2491881 TTCTCTTTTTCTT
1 TTCT-TTTTTCTT
2491894 TTCTTTTCTTCTT
1 TTCTTTT-TTCTT
*
2491907 TTCTTATTTTTCTC
1 TTC-T-TTTTTCTT
2491921 TTCTTTTTT
1 TTCTTTTTT
2491930 GATTTTTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.25
13 13 0.41
14 8 0.25
15 3 0.09
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:2491906 original size:19 final size:20
Alignment explanation
Indices: 2491884--2491947 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
2491874 TTTGAACTTC
2491884 TCTTTTTCTT-TTCTTT-TCT
1 TCTTTTTCTTATT-TTTCTCT
2491903 TC-TTTTCTTATTTTTCTCT
1 TCTTTTTCTTATTTTTCTCT
* *
2491922 TCTTTTT-TGATTTTTGTCT
1 TCTTTTTCTTATTTTTCTCT
2491941 TCTTTTT
1 TCTTTTT
2491948 GCACTCCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 10 0.25
19 26 0.65
20 4 0.10
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (20 bp):
TCTTTTTCTTATTTTTCTCT
Found at i:2495308 original size:19 final size:19
Alignment explanation
Indices: 2495275--2495318 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2495265 TTATAGGAGT
2495275 CTTTTTCTTTCTCTTTTTG
1 CTTTTTCTTTCTCTTTTTG
*
2495294 -TTTTTCTTATTTCTTTTTG
1 CTTTTTCTT-TCTCTTTTTG
2495313 CTTTTT
1 CTTTTT
2495319 GTTGTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (19 bp):
CTTTTTCTTTCTCTTTTTG
Found at i:2495319 original size:7 final size:6
Alignment explanation
Indices: 2495274--2495318 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
2495264 GTTATAGGAG
* *
2495274 TCTTTT TCTTTC TCTTTT TGTTTT TCTTATT TCTTTT TGCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT T-CTTTT T
2495319 GTTGTTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 21 0.64
7 12 0.36
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:2496713 original size:10 final size:10
Alignment explanation
Indices: 2496698--2496722 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2496688 TCCCATCATG
2496698 TGTTCGAACA
1 TGTTCGAACA
2496708 TGTTCGAACA
1 TGTTCGAACA
2496718 TGTTC
1 TGTTC
2496723 CTACAAAAGA
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:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (10 bp):
TGTTCGAACA
Found at i:2498320 original size:29 final size:28
Alignment explanation
Indices: 2498280--2498340 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
2498270 AAAAGACAAA
*
2498280 AAAAGAAGAAG-AAAATTTCAGAAAATAAG
1 AAAAGAAGAAGAAAAAATTCA-AAAA-AAG
2498309 AAAAG-AGAAAGAAAAAATTCAAAAAAAG
1 AAAAGAAG-AAGAAAAAATTCAAAAAAAG
2498337 AAAA
1 AAAA
2498341 AGTAAGCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 9 0.31
29 12 0.41
30 8 0.28
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (28 bp):
AAAAGAAGAAGAAAAAATTCAAAAAAAG
Found at i:2498341 original size:29 final size:32
Alignment explanation
Indices: 2498277--2498342 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
2498267 AAGAAAAGAC
*
2498277 AAAAAAAGAAGAAGAAAATTTCAGAAAATAAG
1 AAAAAGAGAAGAAGAAAATTTCAGAAAATAAG
2498309 -AAAAGAGAAAGAA-AAAA-TTCA-AAAA-AAG
1 AAAAAGAG-AAGAAGAAAATTTCAGAAAATAAG
2498337 AAAAAG
1 AAAAAG
2498343 TAAGCCAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 3 0.10
29 9 0.29
30 4 0.13
31 10 0.32
32 5 0.16
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.09
Consensus pattern (32 bp):
AAAAAGAGAAGAAGAAAATTTCAGAAAATAAG
Found at i:2507547 original size:6 final size:6
Alignment explanation
Indices: 2507536--2507594 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
2507526 GATGTATAAG
* *
2507536 TCTTTT TC-TTT TCTTTT TATTTT TCTTCTT TCTTCTT TCTCTT T-TTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTT-TT TCTTTT TCTTTT
*
2507584 T-TTTT GCTTTT
1 TCTTTT TCTTTT
2507595 GTTGTTTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 13 0.29
6 20 0.44
7 12 0.27
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:2515486 original size:40 final size:40
Alignment explanation
Indices: 2515442--2515519 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
2515432 AAGGATGAGG
*
2515442 ATACTTGGAAGTCTTGAGACCCAACTTTTACACCATGTGA
1 ATACTTGGAAGTCTTGAGACCCAACTTTTACAACATGTGA
2515482 ATACTTGGAAGTCTTGAGACCCAACTTTTACAACATGT
1 ATACTTGGAAGTCTTGAGACCCAACTTTTACAACATGT
2515520 CCTTTTGACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (40 bp):
ATACTTGGAAGTCTTGAGACCCAACTTTTACAACATGTGA
Found at i:2516069 original size:28 final size:25
Alignment explanation
Indices: 2516014--2516069 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
2516004 TTCTTTGCTT
**
2516014 TTTCTTCTTTTGAGTGCTGGATTTC
1 TTTCTTCTTTTGAGTGCTCAATTTC
2516039 TTTCTTTCTTTTGGAGTGCTTCAATTTC
1 TTTC-TTCTTTT-GAGTGC-TCAATTTC
2516067 TTT
1 TTT
2516070 TCTGATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 7 0.27
27 6 0.23
28 9 0.35
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.59
Consensus pattern (25 bp):
TTTCTTCTTTTGAGTGCTCAATTTC
Found at i:2519145 original size:19 final size:20
Alignment explanation
Indices: 2519098--2519148 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
2519088 GAAACCCCTT
**
2519098 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
2519118 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
2519137 TGAAGATACATG
1 TGAAAATACATG
2519149 CTCTTGGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:2521484 original size:21 final size:22
Alignment explanation
Indices: 2521454--2521497 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2521444 AATATGATTA
*
2521454 ATAAAGGAAAATTAATGAAATG
1 ATAAAGGAAAATGAATGAAATG
*
2521476 ATAAA-GAAAATGAGTGAAATG
1 ATAAAGGAAAATGAATGAAATG
2521497 A
1 A
2521498 AATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.20
Consensus pattern (22 bp):
ATAAAGGAAAATGAATGAAATG
Found at i:2523321 original size:47 final size:44
Alignment explanation
Indices: 2523252--2523363 Score: 127
Period size: 47 Copynumber: 2.5 Consensus size: 44
2523242 TTAATTTTTT
* *
2523252 TTCCATATGCTCGTAATCTTATTTTACCAAAATACCTACCATATAAA
1 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACCTACCAT-T--A
* * * * *
2523299 TTCCATAAGCTCTTAAGCTTATTTTATCAATATACTTGCCATTA
1 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACCTACCATTA
2523343 TT-CATAAGCTCGTAAGCTTAT
1 TTCCATAAGCTCGTAAGCTTAT
2523364 ATGCATACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
43 18 0.32
44 3 0.05
46 1 0.02
47 35 0.61
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (44 bp):
TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACCTACCATTA
Found at i:2523512 original size:40 final size:40
Alignment explanation
Indices: 2523447--2523530 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
2523437 ATAGGAGTCA
* * * * *
2523447 AATATTGCACCGAAGTGCTGTGGTCGAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
* *
2523487 AATAATGCACCGTAGTGCTGAGGTCGGGATTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
2523527 AATA
1 AATA
2523531 CACCGTAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
Found at i:2524837 original size:29 final size:29
Alignment explanation
Indices: 2524780--2524845 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
2524770 AGGTTCTTCA
* * *
2524780 TCAATTTTCCAAAATTTACGAATTTATCC
1 TCAATTTTCCAAAACTTACGAAATGATCC
2524809 TCAACTTTTCC-AAACTTACGAAATGATCC
1 TCAA-TTTTCCAAAACTTACGAAATGATCC
*
2524838 CCAATTTT
1 TCAATTTT
2524846 TATGAGGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.12
29 22 0.69
30 6 0.19
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (29 bp):
TCAATTTTCCAAAACTTACGAAATGATCC
Found at i:2528069 original size:8 final size:8
Alignment explanation
Indices: 2528056--2528085 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
2528046 ATTTCATATG
2528056 CAAATTTC
1 CAAATTTC
2528064 CAAATTTC
1 CAAATTTC
2528072 CAAATTTC
1 CAAATTTC
2528080 CAAATT
1 CAAATT
2528086 ATCTATCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (8 bp):
CAAATTTC
Found at i:2530253 original size:43 final size:46
Alignment explanation
Indices: 2530142--2530253 Score: 149
Period size: 47 Copynumber: 2.5 Consensus size: 46
2530132 CTTACTTTTT
*
2530142 TTCCATATGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAAA
1 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTT-AA
* * **
2530189 TTCCATAAGCTCGTAAGCTTATTTTATCAATATACTTGTCA-TT-A
1 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAA
2530233 TT-CATAAGCTCGTAAGCTTAT
1 TTCCATAAGCTCGTAAGCTTAT
2530254 ATGCATACTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 19 0.32
44 3 0.05
46 2 0.03
47 36 0.60
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (46 bp):
TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTTAA
Found at i:2531704 original size:29 final size:30
Alignment explanation
Indices: 2531651--2531714 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
2531641 TCTTCATCAA
* * *
2531651 TTTTCCAAAATTTACGAATTTATCCCCAAC
1 TTTTCCAAAACTTACGAAATGATCCCCAAC
* *
2531681 TTTTCC-AAACTTACGAAATGATCCCTAAT
1 TTTTCCAAAACTTACGAAATGATCCCCAAC
2531710 TTTTC
1 TTTTC
2531715 TGAGGCTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTTCCAAAACTTACGAAATGATCCCCAAC
Found at i:2533080 original size:90 final size:90
Alignment explanation
Indices: 2532974--2533138 Score: 294
Period size: 90 Copynumber: 1.8 Consensus size: 90
2532964 ATTTAATTTC
* * *
2532974 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
2533039 GGATATAAAAAGATTATTAAATTAT
66 GGATATAAAAAGATTATTAAATTAT
2533064 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
1 AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
*
2533129 GGCTATAAAA
66 GGATATAAAA
2533139 GGGTGTGTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (90 bp):
AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAGGGTAACTT
GGATATAAAAAGATTATTAAATTAT
Found at i:2533919 original size:16 final size:16
Alignment explanation
Indices: 2533894--2533926 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2533884 AAAATTTGCA
2533894 TATTTCCAGACCAAAT
1 TATTTCCAGACCAAAT
*
2533910 TATTTTCAGACCAAAT
1 TATTTCCAGACCAAAT
2533926 T
1 T
2533927 TCTCTGATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (16 bp):
TATTTCCAGACCAAAT
Found at i:2534766 original size:16 final size:16
Alignment explanation
Indices: 2534750--2534781 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2534740 CACAAATTTA
2534750 TATAT-TTATA-TATT
1 TATATCTTATATTATT
2534764 TATATCTTATATTATT
1 TATATCTTATATTATT
2534780 TA
1 TA
2534782 GCTTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 5 0.31
16 6 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATCTTATATTATT
Found at i:2536289 original size:23 final size:24
Alignment explanation
Indices: 2536274--2536317 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2536264 AAACAAAAGT
*
2536274 AACAAAAA-AAAAGAAAGAAGAAA
1 AACAAAAAGAAAAGAAACAAGAAA
2536297 AACAAAAAGAAAAGAAA-AAGA
1 AACAAAAAGAAAAGAAACAAGA
2536318 CTCCTACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (24 bp):
AACAAAAAGAAAAGAAACAAGAAA
Found at i:2536309 original size:6 final size:6
Alignment explanation
Indices: 2536277--2536317 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
2536267 CAAAAGTAAC
*
2536277 AAAA-A AAAAGA AAGAAGA AAAACA AAAAG- AAAAGA AAAAGA
1 AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA AAAAGA
2536318 CTCCTACATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 9 0.29
6 16 0.52
7 6 0.19
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:2554574 original size:26 final size:26
Alignment explanation
Indices: 2554538--2554593 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
2554528 CTAGCAATCA
2554538 TTTTGTATATGAGAAATCATTAATTG
1 TTTTGTATATGAGAAATCATTAATTG
*
2554564 TTTTGTATATGAGAAATCATTAATTT
1 TTTTGTATATGAGAAATCATTAATTG
2554590 TTTT
1 TTTT
2554594 ATTTCTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (26 bp):
TTTTGTATATGAGAAATCATTAATTG
Found at i:2556268 original size:10 final size:10
Alignment explanation
Indices: 2556253--2556283 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2556243 ACAATTGTCA
2556253 TAAAACTAAT
1 TAAAACTAAT
2556263 TAAAACTAAT
1 TAAAACTAAT
*
2556273 TAAAAATAAT
1 TAAAACTAAT
2556283 T
1 T
2556284 TTATGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAACTAAT
Found at i:2564811 original size:191 final size:191
Alignment explanation
Indices: 2564537--2564908 Score: 516
Period size: 191 Copynumber: 1.9 Consensus size: 191
2564527 AATCACAACC
* * * * * *
2564537 GATTTAGGTATTCTTCTTGACTTAAAGACCTTAGTTTGAATTTTTATCGAAATGTACTTCCTCAT
1 GATTTAGGTATTCTTCTCGACATAAAGACCTCAGTTTGAATTTTGATCGAAAGGTAATTCCTCAT
* *
2564602 TGCTAACATACAGTCAATGTGCTTACGAA-CTGAATGGAATCAAACTTGAAAGCCTTTAGTCGAT
66 TGCTAACATACAGTCAATGTGCTTAC-AAGCTAAACGGAATCAAACTTGAAAGCCTTTAGTCGAT
* * * *
2564666 AGATAGCTATTCCCAAATTAAGCTATGTTGAAAGTTGGGTTGGTAAGTAGTTCATCGTAGCA
130 AGATAGCTATTACCAAATTAAGCTATGTCGAAAGTTGGGCTGGGAAGTAGTTCATCGTAGCA
* *
2564728 GATTTAGGTCA-TCTTCTCGACATAATGACCTCAGTTTTAATTTTGAGT-GAAAGGTAATTCCTC
1 GATTTAGGT-ATTCTTCTCGACATAAAGACCTCAGTTTGAATTTTGA-TCGAAAGGTAATTCCTC
* * *
2564791 ATTGCTAACATGCGGTCAATGTGCTTTCAAGCTAAACGGAATCAAACTTGAAAGCCTTTAGTCGA
64 ATTGCTAACATACAGTCAATGTGCTTACAAGCTAAACGGAATCAAACTTGAAAGCCTTTAGTCGA
* * *
2564856 TAGATAGCTCTTATCAACTTAAGCTATGTCGAAAGTTGGGCTGGGAAGTAGTT
129 TAGATAGCTATTACCAAATTAAGCTATGTCGAAAGTTGGGCTGGGAAGTAGTT
2564909 TGTCGTTGCT
Statistics
Matches: 158, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
190 2 0.01
191 154 0.97
192 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (191 bp):
GATTTAGGTATTCTTCTCGACATAAAGACCTCAGTTTGAATTTTGATCGAAAGGTAATTCCTCAT
TGCTAACATACAGTCAATGTGCTTACAAGCTAAACGGAATCAAACTTGAAAGCCTTTAGTCGATA
GATAGCTATTACCAAATTAAGCTATGTCGAAAGTTGGGCTGGGAAGTAGTTCATCGTAGCA
Found at i:2567844 original size:20 final size:19
Alignment explanation
Indices: 2567819--2567864 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
2567809 AAGTTTGGTT
*
2567819 TGAAAAATTCAATTTCTTAA
1 TGAAAAATT-AAATTCTTAA
2567839 TGAAAAA-TAAATTCTTAA
1 TGAAAAATTAAATTCTTAA
2567857 TGAAAAAT
1 TGAAAAAT
2567865 GGGGAGCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 16 0.67
19 1 0.04
20 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (19 bp):
TGAAAAATTAAATTCTTAA
Found at i:2567927 original size:19 final size:19
Alignment explanation
Indices: 2567903--2567961 Score: 100
Period size: 19 Copynumber: 3.0 Consensus size: 19
2567893 CAACAATTGG
2567903 TAACAATTGATATCTTTTT
1 TAACAATTGATATCTTTTT
2567922 TAACAATTGATATCCTTTTGT
1 TAACAATTGATAT-CTTTT-T
2567943 TAACAATTGATATCTTTTT
1 TAACAATTGATATCTTTTT
2567962 CATTAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.37
20 10 0.26
21 14 0.37
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (19 bp):
TAACAATTGATATCTTTTT
Found at i:2568209 original size:20 final size:20
Alignment explanation
Indices: 2568184--2568224 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2568174 ATTTACTATA
*
2568184 TAAATAGTATCGACACTGTT
1 TAAATAGTAGCGACACTGTT
*
2568204 TAAATAGTAGCGATACTGTT
1 TAAATAGTAGCGACACTGTT
2568224 T
1 T
2568225 GAACGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (20 bp):
TAAATAGTAGCGACACTGTT
Found at i:2568254 original size:30 final size:30
Alignment explanation
Indices: 2568209--2568269 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
2568199 CTGTTTAAAT
* *
2568209 AGTAGCGATACTGTTTGAACGGTAATGAAC
1 AGTAGCGATAATGTTTGAACAGTAATGAAC
* *
2568239 AGTATCGATAATGTTTGAACAGTGATGAAC
1 AGTAGCGATAATGTTTGAACAGTAATGAAC
2568269 A
1 A
2568270 ATACCAAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (30 bp):
AGTAGCGATAATGTTTGAACAGTAATGAAC
Found at i:2570119 original size:29 final size:31
Alignment explanation
Indices: 2570042--2570119 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
2570032 CTTTTCAATA
* * *
2570042 TTATATTTTTGGTCCCTAAACTTTTACAAAGT
1 TTATA-TTTTAGTCACTAAACTTTTACAAAGC
*
2570074 TTATACTTTAG-CTACTAAACTTTTA-AAA-C
1 TTATATTTTAGTC-ACTAAACTTTTACAAAGC
2570103 TTATATTTTAGTCACTA
1 TTATATTTTAGTCACTA
2570120 GTAAAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 14 0.36
30 5 0.13
31 15 0.38
32 5 0.13
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.46
Consensus pattern (31 bp):
TTATATTTTAGTCACTAAACTTTTACAAAGC
Found at i:2574020 original size:10 final size:10
Alignment explanation
Indices: 2574005--2574029 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2573995 ATAAATTTTT
2574005 CATTTTCTTC
1 CATTTTCTTC
2574015 CATTTTCTTC
1 CATTTTCTTC
2574025 CATTT
1 CATTT
2574030 CCAAGTCTTT
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:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (10 bp):
CATTTTCTTC
Found at i:2586283 original size:62 final size:62
Alignment explanation
Indices: 2586209--2586343 Score: 234
Period size: 62 Copynumber: 2.2 Consensus size: 62
2586199 AATCTTATAC
*
2586209 TATCGATACTCTTGCTTCAGTATTGCTACCACCAATCTAAATTATCCTGAAAGGAAATGGAG
1 TATCGATACTCTTGCTTAAGTATTGCTACCACCAATCTAAATTATCCTGAAAGGAAATGGAG
* *
2586271 TATCGATACTCTTGCTTAAGTATTGCTACCACCAATCTAAATTATCTTGAAAGGGAATGGAG
1 TATCGATACTCTTGCTTAAGTATTGCTACCACCAATCTAAATTATCCTGAAAGGAAATGGAG
*
2586333 TATCGAAACTC
1 TATCGATACTC
2586344 ACGTAGGAGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (62 bp):
TATCGATACTCTTGCTTAAGTATTGCTACCACCAATCTAAATTATCCTGAAAGGAAATGGAG
Found at i:2593995 original size:49 final size:49
Alignment explanation
Indices: 2593936--2594058 Score: 192
Period size: 49 Copynumber: 2.5 Consensus size: 49
2593926 CTTTATGCTG
2593936 AATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAA
1 AATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAA
** *
2593985 AATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATGTCGA
1 AATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAA
* **
2594034 AATGCACCATTACACATTTAACTTT
1 AATGCACCGTTATGCATTTAACTTT
2594059 AGCACCCTGA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (49 bp):
AATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATACCAA
Found at i:2594582 original size:18 final size:19
Alignment explanation
Indices: 2594540--2594587 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
2594530 AGAATCCATG
**
2594540 GTATCGATACCTTTATCTTA
1 GTATCGATACCCATATC-TA
2594560 GTATCGATACCCATATC-A
1 GTATCGATACCCATATCTA
2594578 GTATCGATAC
1 GTATCGATAC
2594588 TGATTTCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (19 bp):
GTATCGATACCCATATCTA
Found at i:2607165 original size:27 final size:27
Alignment explanation
Indices: 2607094--2607154 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
2607084 GATTGCGAGA
* **
2607094 GGTCAAACTTCTCAAACTCGTTAAATT
1 GGTCAAACTTGTCAAACTTATTAAATT
2607121 GGTCAAACTTGTCAAACTTATTAAATT
1 GGTCAAACTTGTCAAACTTATTAAATT
2607148 GGTCAAA
1 GGTCAAA
2607155 TTTTTTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (27 bp):
GGTCAAACTTGTCAAACTTATTAAATT
Found at i:2610653 original size:21 final size:20
Alignment explanation
Indices: 2610616--2610688 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
2610606 TGTTGTACAA
2610616 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
2610636 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
*
2610656 GGGGGAATCGATACCCCCTGG
1 GGGGGAATCGGTACCCCCT-G
2610677 GGGGGAATCGGT
1 GGGGGAATCGGT
2610689 TCCCTCCGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 38 0.76
21 12 0.24
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.15
Consensus pattern (20 bp):
GGGGGAATCGGTACCCCCTG
Found at i:2612805 original size:21 final size:21
Alignment explanation
Indices: 2612779--2612818 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2612769 CAGAACCCCA
*
2612779 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2612800 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2612819 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2612851 original size:20 final size:21
Alignment explanation
Indices: 2612803--2612861 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
2612793 CCCCTGTGGG
*
2612803 GGGAATCGGTTCCCCTTCAAAGG
1 GGGAATCGGTT-CCC-TCAAAGA
*
2612826 GGGAATCGGTTCCCTC-ATGA
1 GGGAATCGGTTCCCTCAAAGA
*
2612846 GGGAATCGATTCCCTC
1 GGGAATCGGTTCCCTC
2612862 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 3 0.09
23 11 0.33
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCAAAGA
Found at i:2618183 original size:20 final size:20
Alignment explanation
Indices: 2618158--2618208 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2618148 TGGAGCGTGG
2618158 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
2618178 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
2618198 GGGGAATCGGT
1 GGGGAATCGGT
2618209 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTAT
Found at i:2621016 original size:23 final size:23
Alignment explanation
Indices: 2620982--2621025 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2620972 GCATTTTCGT
2620982 AAGAGTAATTTGTGTACTATGGC
1 AAGAGTAATTTGTGTACTATGGC
*
2621005 AAGAGTACTTTGTGTACTATG
1 AAGAGTAATTTGTGTACTATG
2621026 ACACTTTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (23 bp):
AAGAGTAATTTGTGTACTATGGC
Found at i:2622321 original size:23 final size:23
Alignment explanation
Indices: 2622295--2622338 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2622285 TATTTTATAA
*
2622295 TTTTT-AAAAATTAATAATTATT
1 TTTTTAAAAAATTAAAAATTATT
2622317 TTTTTAAAAAATTAAAAATTAT
1 TTTTTAAAAAATTAAAAATTAT
2622339 AATTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTTAAAAAATTAAAAATTATT
Found at i:2623373 original size:36 final size:36
Alignment explanation
Indices: 2623333--2623471 Score: 242
Period size: 36 Copynumber: 3.9 Consensus size: 36
2623323 ACGGTGCTGG
2623333 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
2623369 ACATTGATACACGAATGTATCAAAGCTAATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
2623405 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
2623441 ACATTGATACACGAATGTATCAAAGTTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
2623472 ATGGATAAAT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 97 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:2625436 original size:29 final size:29
Alignment explanation
Indices: 2625404--2625460 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2625394 TTGACCCTTT
2625404 AATTTTCCAAAATTTA-ATTTTAGTCACTA
1 AATTTT-CAAAATTTACATTTTAGTCACTA
*
2625433 AATTTTCAAATTTTACATTTTAGTCACT
1 AATTTTCAAAATTTACATTTTAGTCACT
2625461 TAACAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (29 bp):
AATTTTCAAAATTTACATTTTAGTCACTA
Found at i:2630267 original size:40 final size:40
Alignment explanation
Indices: 2630207--2630288 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
2630197 ACTGTAGTCC
* *
2630207 TACACATAAGTTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACATCGAAGTGTAT
2630247 TACACATAAGGTCGTACCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACATCGAAGTGTAT
2630287 TA
1 TA
2630289 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (40 bp):
TACACATAAGGTCGTACCCACCATATACATCGAAGTGTAT
Found at i:2630675 original size:28 final size:28
Alignment explanation
Indices: 2630641--2630695 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
2630631 TTATGTCTTT
2630641 CAAAATATATGAGCCTCACTATTGTCCA
1 CAAAATATATGAGCCTCACTATTGTCCA
*
2630669 CAAAATATATGATCCTCACTATTGTCC
1 CAAAATATATGAGCCTCACTATTGTCC
2630696 TCCATAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (28 bp):
CAAAATATATGAGCCTCACTATTGTCCA
Found at i:2639707 original size:36 final size:36
Alignment explanation
Indices: 2639667--2639805 Score: 197
Period size: 36 Copynumber: 3.9 Consensus size: 36
2639657 ACGGTGCTGG
*
2639667 ACATTGATACACAAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
2639703 ACATTGATACACGAATGCATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
2639739 AAATTGATACACGAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * * *
2639775 ACATTGATAAATGAATTTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
2639806 ATGGATAAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 90 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:2639797 original size:72 final size:74
Alignment explanation
Indices: 2639669--2639814 Score: 224
Period size: 72 Copynumber: 2.0 Consensus size: 74
2639659 GGTGCTGGAC
*
2639669 ATTGATACACAAATGTACCAAAGCTGATATGATAACATTGATACACGAATGCATCAAAGCTGAT-
1 ATTGATACACAAATGTACCAAAGCTGATATGATAACATTGATAAACGAATGCATCAAAGCTGATA
2639733 AT-GATAAA
66 ATGGATAAA
* * * **
2639741 ATTGATACACGAATGTACCAAAGTTGATATGATAACATTGATAAATGAATTTATCAAAGCTGATA
1 ATTGATACACAAATGTACCAAAGCTGATATGATAACATTGATAAACGAATGCATCAAAGCTGATA
2639806 ATGGATAAA
66 ATGGATAAA
2639815 TACTCAACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 58 0.88
73 2 0.03
74 6 0.09
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (74 bp):
ATTGATACACAAATGTACCAAAGCTGATATGATAACATTGATAAACGAATGCATCAAAGCTGATA
ATGGATAAA
Found at i:2640548 original size:21 final size:22
Alignment explanation
Indices: 2640524--2640565 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2640514 CCTCAACATT
2640524 TCAAACATTTATAA-TTTCAAC
1 TCAAACATTTATAACTTTCAAC
* *
2640545 TCAAACTTTTCTAACTTTCAA
1 TCAAACATTTATAACTTTCAA
2640566 TTTTCAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAAACATTTATAACTTTCAAC
Found at i:2641778 original size:29 final size:29
Alignment explanation
Indices: 2641744--2641832 Score: 153
Period size: 29 Copynumber: 3.1 Consensus size: 29
2641734 TTGTCTCTTT
2641744 AATTTTCCAAAATTT-CATTTTAGTCACTA
1 AATTTT-CAAAATTTACATTTTAGTCACTA
*
2641773 ACTTTTCAAAATTTACATTTTAGTCACTA
1 AATTTTCAAAATTTACATTTTAGTCACTA
2641802 AATTTTCAAAATTTACATTTTAGTCACTA
1 AATTTTCAAAATTTACATTTTAGTCACTA
2641831 AA
1 AA
2641833 CAAAATTTGG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
28 8 0.14
29 49 0.86
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (29 bp):
AATTTTCAAAATTTACATTTTAGTCACTA
Found at i:2645002 original size:21 final size:21
Alignment explanation
Indices: 2644978--2645021 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2644968 CAATACACGG
* * *
2644978 AAGTACCTTAGCACTGGTACA
1 AAGTACCTCAACACTGATACA
2644999 AAGTACCTCAACACTGATACA
1 AAGTACCTCAACACTGATACA
2645020 AA
1 AA
2645022 AGTGTATTCT
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:0.25, G:0.14, T:0.20
Consensus pattern (21 bp):
AAGTACCTCAACACTGATACA
Found at i:2647114 original size:45 final size:45
Alignment explanation
Indices: 2647063--2647193 Score: 154
Period size: 46 Copynumber: 2.9 Consensus size: 45
2647053 AATTCACCCA
** * * *
2647063 TATACATTTCAACTATGGCATCATTCCATGCCTTTTATATGCTAT
1 TATACATTTCATTTATGGCATCATTTCATGCCTTTTATACGCCAT
* * *
2647108 TGTACATTTCATTTATGGAATCATTTCATGCCCTTTCATACGCCAT
1 TATACATTTCATTTATGGCATCATTTCATG-CCTTTTATACGCCAT
* * *
2647154 TATATAGTTCATTTATGGCATCATTTCATGCCTTATATAC
1 TATACATTTCATTTATGGCATCATTTCATGCCTTTTATAC
2647194 AACATTATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 33 0.46
46 38 0.54
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (45 bp):
TATACATTTCATTTATGGCATCATTTCATGCCTTTTATACGCCAT
Found at i:2647687 original size:20 final size:21
Alignment explanation
Indices: 2647659--2647700 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2647649 CATTTATGGA
*
2647659 ATCCTTTCATGCCT-TAATGC
1 ATCCGTTCATGCCTATAATGC
2647679 ATCCGTTCATGCCTATAATGC
1 ATCCGTTCATGCCTATAATGC
2647700 A
1 A
2647701 CCCATATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.36
Consensus pattern (21 bp):
ATCCGTTCATGCCTATAATGC
Found at i:2647755 original size:45 final size:45
Alignment explanation
Indices: 2647677--2648081 Score: 551
Period size: 45 Copynumber: 9.0 Consensus size: 45
2647667 ATGCCTTAAT
* * *
2647677 GCATCCGTTCATGCCTATAATGCACCCATATGCATTATTATGTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* * * *
2647722 GCAT-CTTTCCATACCGATAATACACACAAATGCATTATTATTTTG
1 GCATCCTTT-CATGCCGATAATGCACCCATATGCATTATTATTTTG
* **
2647767 GCATTCTTTCATGCATATAATGCACCCATATGCATTATTATTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* *
2647812 GCATCATTTCATGCCGATAATGCACCCATATGCATTATTATTTTT
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
** * *
2647857 TTATCCTTTCATGCTGATAATGCACACATATGCATTATTATTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* * **
2647902 ACATCCTTTCATGCCGATAATTCACCCATACCCATTATTATTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
*
2647947 GCATCCTTTCATGCCGATAATGCACACATATGCATTATTATTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* * *
2647992 GCATCCTTTCATGCCAATAATGAATCCATATGCATTATTATTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
* * *
2648037 ACATCATTTCATACCGATAATGCACCCATATGCATTATTATTTTG
1 GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
2648082 TTCATTCCTT
Statistics
Matches: 312, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
44 3 0.01
45 305 0.98
46 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (45 bp):
GCATCCTTTCATGCCGATAATGCACCCATATGCATTATTATTTTG
Found at i:2648515 original size:20 final size:20
Alignment explanation
Indices: 2648486--2648558 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
2648476 CCAAGCTCAA
*
2648486 TAGTATCGGTACTACAACCC
1 TAGTACCGGTACTACAACCC
2648506 TAGTACCGGTACTACAACCC
1 TAGTACCGGTACTACAACCC
2648526 TAGTACCGGTACTACAACCC
1 TAGTACCGGTACTACAACCC
*
2648546 TAGTACCGATACT
1 TAGTACCGGTACT
2648559 TCTATACTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (20 bp):
TAGTACCGGTACTACAACCC
Found at i:2655487 original size:40 final size:40
Alignment explanation
Indices: 2655432--2655513 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
2655422 ATTCTGTGCA
*
2655432 CTAGGTATCAATACCATATTTAAATGGGTACTGATACCCT
1 CTAGGTATCAATACCATATTTAAATGGGTACTAATACCCT
*
2655472 CTAGGTATCAATACCATATTTAAATGGGTGCTAATACCCT
1 CTAGGTATCAATACCATATTTAAATGGGTACTAATACCCT
2655512 CT
1 CT
2655514 TTGAATGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (40 bp):
CTAGGTATCAATACCATATTTAAATGGGTACTAATACCCT
Found at i:2659448 original size:728 final size:710
Alignment explanation
Indices: 2658061--2659503 Score: 2715
Period size: 728 Copynumber: 2.0 Consensus size: 710
2658051 CCAAGGTGTA
2658061 TTTAAACAATTTCTGAAGCCATTGATCAACAAGAATTCATTGAGAAACAAGAGAGAAAACATTAA
1 TTTAAACAATTTCTGAAGCCATTGATCAACAAGAATTCATTGAGAAACAAGAGAGAAAACATTAA
2658126 ACATCATGTTTGTGCATTTCAAGCCAATTTTCCTTCAATATTCATTTTGCTTTCAAGAACACATA
66 ACATCATGTTTGTGCATTTCAAGCCAATTTTCCTTCAATATTCATTTTGCTTTCAAGAACACATA
2658191 TTGTGCTCATTTGTAATCTCTTGAGTGTTCCTTTTTGTTCTAGAATTGAGCAACACATTGCCTTT
131 TTGTGCTCATTTGTAATCTCTTGAGTGTTCCTTTTTGTTCTAGAATTGAGCAACACATTGCCTTT
*
2658256 CATGTTTTTTTGTAAGTTTGCAATACTTGTATGTTCGTTTGGGGAGAGTGTTCTCAAGAATTTGG
196 CATGTTTTTTTGTAAGTTTGCAATACTTGTATGTTCCTTTGGGGAGAGTGTTCTCAAGAATTTGG
2658321 GGTATAATTCTTAAGGGATTTAAGGTTACTTTTTGTCCTCAAACAAAGACAAATTAGTGAATTTG
261 GGTATAATTCTTAAGGGATTTAAGGTTACTTTTTGTCCTCAAACAAAGACAAATTAGTGAATTTG
2658386 TGGAAAATCTTTAGTGTGAATAGCTAGGTAGTGGACGACTTGGTTGAGAAAGTCGAACCACTCTA
326 TGGAAAATCTTTAGTGTGAATAGCTAGGTAGTGGACGACTTGGTTGAGAAAGTCGAACCACTCTA
2658451 AATCGCTGTGCAAATATTTTATTTTCTGCAAAAGCTTCAACCAAAATATTTATTCCCAATTTACC
391 AATCGCTGTGCAAATATTTTATTTTCTGCAAAAGCTTCAACCAAAATATTTATTCCCAATTTACC
2658516 CCTTCTTGGCTATTTCGTCGATCGATTAACTCAACATAACTTCTATTTGGGGTATTACAATTCTC
456 CCTTCTTGGCTATTTCGTCGATCGATTAACTCAACATAACTTCTATTTGGGGTATTACAATTCTC
2658581 CCCTTAAGAAAATTTGTCCTCAAATTTAAAGACTTTATGTGTTTACCATAATACTTCAACTAAAG
521 CCCTTAAGAAAATTTGTCCTCAAATTTAAAGACTTTATGTGTTTACCATAATACTTCAACTAAAG
2658646 AAATCGCTTTGTTACGCGGTTTTTGTATTTCTCTAGTCCAAATTTGTATTGGTTCTTTTACATAA
586 AAATCGCTTTGTTACGCGGTTTTTGTATTTCTCTAGTCCAAATTTGTATTGGTTCTTTTACATAA
2658711 TTTAATTTTAATTGAATCTCCTTTTCCCAAATTAAGAACATGCAATGGATTTGATTGGTC
651 TTTAATTTTAATTGAATCTCCTTTTCCCAAATTAAGAACATGCAATGGATTTGATTGGTC
2658771 TTTAAACAATTTCTGAAGCCATTGATCAACAAGAATTCATTGAGAAACAAGAGAGAAAACATTAA
1 TTTAAACAATTTCTGAAGCCATTGATCAACAAGAATTCATTGAGAAACAAGAGAGAAAACATTAA
2658836 ACATCATGTTTGTGCATTTCAAGCCAATTTTCCTTCAATATTCATTTTGCTTTCAAGAACACATA
66 ACATCATGTTTGTGCATTTCAAGCCAATTTTCCTTCAATATTCATTTTGCTTTCAAGAACACATA
2658901 TTGTGCTCATTTGTAATCATCTTTGAGTGTTCCTTTTTTGTTCTAGAATTGAGCAAACACATTGC
131 TTGTGCTCATTTGTAATC-TC-TTGAGTGTTCC-TTTTTGTTCTAGAATTGAGC-AACACATTGC
2658966 CTTTCATGTTTTTTTGTAAGTTTGCAATACTTGTATTGTTCTCTTTGGGAGAGAGTGTTCTCAAG
192 CTTTCATGTTTTTTTGTAAGTTTGCAATACTTGTA-TGTTC-CTTTGGG-GAGAGTGTTCTCAAG
2659031 AATTTGGGGTATAATTCTTAAGGGATTTGTAAGGTTACTTTTTGTCCTCAAAACAAAGACAAATT
254 AATTTGGGGTATAATTCTTAAGGGA-TT-TAAGGTTACTTTTTGTCCTC-AAACAAAGACAAATT
2659096 AGTGAATTTGTGGAAAATCTTTAGTGTGAATAGCTAAGGTAGTGGACGTAGACTTTGGTTGAGAA
316 AGTGAATTTGTGGAAAATCTTTAGTGTGAATAGCT-AGGTAGTGGAC---GAC-TTGGTTGAGAA
2659161 AGTCGAACCACTCTAAATCGCTGTGCAAATATTTTCTATTTTCTGCAAAAGCTTCAACCAAAATA
376 AGTCGAACCACTCTAAATCGCTGTGCAAATA-TTT-TATTTTCTGCAAAAGCTTCAACCAAAATA
2659226 TTTATTCCCAATTTACCCCTTCTTGGCTATTTCGTCGATCGATTAACTCAACATAACTTCTATTT
439 TTTATTCCCAATTTACCCCTTCTTGGCTATTTCGTCGATCGATTAACTCAACATAACTTCTATTT
2659291 GGGGTATTACAATTCTCCCCCTTAAGAAAATTTGTCCTCAAATTTAAAGACTTTATGTGTTTACC
504 GGGGTATTACAATTCT-CCCCTTAAGAAAATTTGTCCTCAAATTTAAAGACTTTATGTGTTTACC
2659356 ATAATACTTCAACTAAAGAAATCGCTTTGTTACGCGGTTTTTGTATTTCTCTAGTCCAAATTTGT
568 ATAATACTTCAACTAAAGAAATCGCTTTGTTACGCGGTTTTTGTATTTCTCTAGTCCAAATTTGT
2659421 ATTGGTTCTTTTACATAATTTAATTTTAATTGAATCTCCTTTTCCCAAATTAAGAACATGCAATG
633 ATTGGTTCTTTTACATAATTTAATTTTAATTGAATCTCCTTTTCCCAAATTAAGAACATGCAATG
2659486 GATTTGATTGGTC
698 GATTTGATTGGTC
2659499 TTTAA
1 TTTAA
2659504 TAAGAAATGA
Statistics
Matches: 714, Mismatches: 1, Indels: 18
0.97 0.00 0.02
Matches are distributed among these distances:
710 148 0.21
711 2 0.00
712 11 0.02
713 20 0.03
714 45 0.06
715 5 0.01
716 6 0.01
717 40 0.06
718 2 0.00
719 20 0.03
720 50 0.07
721 11 0.02
724 3 0.00
725 42 0.06
726 3 0.00
727 110 0.15
728 196 0.27
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (710 bp):
TTTAAACAATTTCTGAAGCCATTGATCAACAAGAATTCATTGAGAAACAAGAGAGAAAACATTAA
ACATCATGTTTGTGCATTTCAAGCCAATTTTCCTTCAATATTCATTTTGCTTTCAAGAACACATA
TTGTGCTCATTTGTAATCTCTTGAGTGTTCCTTTTTGTTCTAGAATTGAGCAACACATTGCCTTT
CATGTTTTTTTGTAAGTTTGCAATACTTGTATGTTCCTTTGGGGAGAGTGTTCTCAAGAATTTGG
GGTATAATTCTTAAGGGATTTAAGGTTACTTTTTGTCCTCAAACAAAGACAAATTAGTGAATTTG
TGGAAAATCTTTAGTGTGAATAGCTAGGTAGTGGACGACTTGGTTGAGAAAGTCGAACCACTCTA
AATCGCTGTGCAAATATTTTATTTTCTGCAAAAGCTTCAACCAAAATATTTATTCCCAATTTACC
CCTTCTTGGCTATTTCGTCGATCGATTAACTCAACATAACTTCTATTTGGGGTATTACAATTCTC
CCCTTAAGAAAATTTGTCCTCAAATTTAAAGACTTTATGTGTTTACCATAATACTTCAACTAAAG
AAATCGCTTTGTTACGCGGTTTTTGTATTTCTCTAGTCCAAATTTGTATTGGTTCTTTTACATAA
TTTAATTTTAATTGAATCTCCTTTTCCCAAATTAAGAACATGCAATGGATTTGATTGGTC
Found at i:2662689 original size:21 final size:21
Alignment explanation
Indices: 2662665--2662708 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2662655 AATAAAAAAT
*
2662665 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
*
2662686 GTGTACCGATGCATTGCTACA
1 GTGTACCGATGCACTGCTACA
2662707 GT
1 GT
2662709 AATTTCAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:2663316 original size:40 final size:40
Alignment explanation
Indices: 2663259--2663368 Score: 184
Period size: 40 Copynumber: 2.8 Consensus size: 40
2663249 ACTGCAGTAC
* *
2663259 TACACACAAGGTTGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
2663299 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
*
2663339 TACACATAAGGTCGTGCCCACCATGTACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
2663369 TTAGTTTCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
Found at i:2664939 original size:30 final size:30
Alignment explanation
Indices: 2664905--2664963 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2664895 TTTGGCCTCT
* *
2664905 AAACTTT-TCAAAGTTTATACTTTGGTCACC
1 AAACTTTACCAAA-TTTATAATTTGGTCACC
2664935 AAACTTTACCAAATTTATAATTTGGTCAC
1 AAACTTTACCAAATTTATAATTTGGTCAC
2664964 TAAATAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTACCAAATTTATAATTTGGTCACC
Found at i:2668709 original size:14 final size:14
Alignment explanation
Indices: 2668690--2668723 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
2668680 CATCGGACAG
2668690 CAGATTCTGTAAAA
1 CAGATTCTGTAAAA
2668704 CAGATTCTGTAAAA
1 CAGATTCTGTAAAA
2668718 CAGATT
1 CAGATT
2668724 ATGTGGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (14 bp):
CAGATTCTGTAAAA
Found at i:2669726 original size:20 final size:20
Alignment explanation
Indices: 2669689--2669731 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2669679 TATATTGGGC
* *
2669689 TATTGTCTATTGTTTATGAT
1 TATTGTCTATGGTATATGAT
*
2669709 TATTGTCTATGGTATATGGT
1 TATTGTCTATGGTATATGAT
2669729 TAT
1 TAT
2669732 GGAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.56
Consensus pattern (20 bp):
TATTGTCTATGGTATATGAT
Found at i:2669807 original size:45 final size:45
Alignment explanation
Indices: 2669753--2669881 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 45
2669743 AAGTGTATTA
* * * *
2669753 ATAAAATAAGCTTACAAGCTTATGGAATTAATGGTAGGTATAATG
1 ATAAAATAAGCTTACGAGCTTATGGAATAAATAGTAAGTATAATG
* * * **
2669798 GTAAGATAAGCTTACGAGCTTATGGGATAAATAGTAAGTATTTTG
1 ATAAAATAAGCTTACGAGCTTATGGAATAAATAGTAAGTATAATG
* *
2669843 ATAAAATAAGCTTGCGAGCTTATGGTTAATAAATGGTAA
1 ATAAAATAAGCTTACGAGCTTATGG--AATAAATAGTAA
2669882 AATATTGATT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
45 58 0.85
47 10 0.15
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
ATAAAATAAGCTTACGAGCTTATGGAATAAATAGTAAGTATAATG
Found at i:2672228 original size:273 final size:274
Alignment explanation
Indices: 2671741--2672290 Score: 1048
Period size: 273 Copynumber: 2.0 Consensus size: 274
2671731 CCTAATGTTA
*
2671741 CCAAAGCAACCCATAATTTAAAGAAAGAACTAGCTAAGGAAAGTTTACCTTTGGAGCTATGGAGG
1 CCAAAGCAACCCATAATTTAAAGAAAGAACTAGCTAAGGAAAGTTTACCTTTAGAGCTATGGAGG
2671806 AGAGCAAAACCCACGTGAGAAGAAGAAGAATGGAAATAGCTTACTTTCCACTTTTTCTTAAATCC
66 AGAGCAAAACCCACGTGAGAAGAAGAAGAATGGAAATAGCTTACTTTCCACTTTTTCTTAAATCC
*
2671871 CTAGAATTTAAATGGGTTTTAATTTCATTTCAATTAAAAAGACCAAAATGCCCTTTTATTAATCT
131 CTAGAATTTAAATGGGTTTTAATTTCATTTCAATTAAAAAGACCAAAATGCCCTTTCATTAATCT
2671936 ATCTCTTACACATTGGTCTTACTCAAGTCATTTCTTATACTTTACCTTTTATTCAATTTAGTCCT
196 ATCTCTTACACATTGGTCTTACTCAAGTCATTTCTTATACTTTACCTTTTATTCAATTTAGTCCT
2672001 CCAAA-TTTAGTTT
261 CCAAATTTTAGTTT
2672014 CCAAAGCAACCCATAATTTAAAGAAAGAACTAGCTAAGGAAAGTTTACCTTTAGAGCTATGGAGG
1 CCAAAGCAACCCATAATTTAAAGAAAGAACTAGCTAAGGAAAGTTTACCTTTAGAGCTATGGAGG
*
2672079 AGAGCAAAACCCACGTGAGAAGAAGAAGAATGGAAATAGCTTATTTTCCACTTTTTCTTAAATCC
66 AGAGCAAAACCCACGTGAGAAGAAGAAGAATGGAAATAGCTTACTTTCCACTTTTTCTTAAATCC
2672144 CTAGAATTTAAATGGGTTTTAATTTCATTTCAATTAAAAAGACCAAAATGCCCTTTCATTAATCT
131 CTAGAATTTAAATGGGTTTTAATTTCATTTCAATTAAAAAGACCAAAATGCCCTTTCATTAATCT
2672209 ATCTCTTACACATTGGTCTTACTCAAGTCATTTCTTATACTTTACCTTTTATTCAATTTAGTCCT
196 ATCTCTTACACATTGGTCTTACTCAAGTCATTTCTTATACTTTACCTTTTATTCAATTTAGTCCT
*
2672274 CTAAATTTTTAGTTT
261 CCAAA-TTTTAGTTT
2672289 CC
1 CC
2672291 TTTCAAATTA
Statistics
Matches: 271, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
273 261 0.96
275 10 0.04
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (274 bp):
CCAAAGCAACCCATAATTTAAAGAAAGAACTAGCTAAGGAAAGTTTACCTTTAGAGCTATGGAGG
AGAGCAAAACCCACGTGAGAAGAAGAAGAATGGAAATAGCTTACTTTCCACTTTTTCTTAAATCC
CTAGAATTTAAATGGGTTTTAATTTCATTTCAATTAAAAAGACCAAAATGCCCTTTCATTAATCT
ATCTCTTACACATTGGTCTTACTCAAGTCATTTCTTATACTTTACCTTTTATTCAATTTAGTCCT
CCAAATTTTAGTTT
Found at i:2679069 original size:23 final size:23
Alignment explanation
Indices: 2679043--2679111 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
2679033 ATTAAATGGT
2679043 ATTTTAAGGAAGTGAATTAGTCC
1 ATTTTAAGGAAGTGAATTAGTCC
* * * * *
2679066 ATTTTTA--TA-TTAAATGGT--
1 ATTTTAAGGAAGTGAATTAGTCC
2679084 ATTTTAAGGAAGTGAATTAGTCC
1 ATTTTAAGGAAGTGAATTAGTCC
2679107 ATTTT
1 ATTTT
2679112 TATATTAAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 10
0.61 0.20 0.20
Matches are distributed among these distances:
18 6 0.19
20 7 0.23
21 7 0.23
23 11 0.35
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (23 bp):
ATTTTAAGGAAGTGAATTAGTCC
Found at i:2679083 original size:41 final size:41
Alignment explanation
Indices: 2679026--2679145 Score: 240
Period size: 41 Copynumber: 2.9 Consensus size: 41
2679016 AAAATAACCT
2679026 TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGTCCA
1 TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGTCCA
2679067 TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGTCCA
1 TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGTCCA
2679108 TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGT
1 TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGT
2679146 TTGGTATATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (41 bp):
TTTTTATATTAAATGGTATTTTAAGGAAGTGAATTAGTCCA
Found at i:2679580 original size:21 final size:22
Alignment explanation
Indices: 2679556--2679597 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2679546 CAATTTAGAA
*
2679556 AATAAAAATT-ATAAATAAATT
1 AATAAAAATTAATAAAAAAATT
2679577 AATAAAAATTAATAAAAAAAT
1 AATAAAAATTAATAAAAAAAT
2679598 CAGAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAAAATTAATAAAAAAATT
Found at i:2679587 original size:10 final size:10
Alignment explanation
Indices: 2679556--2679594 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
2679546 CAATTTAGAA
2679556 AATAAAAATT
1 AATAAAAATT
2679566 -ATAAATAAATT
1 AAT-AA-AAATT
2679577 AATAAAAATT
1 AATAAAAATT
2679587 AATAAAAA
1 AATAAAAA
2679595 AATCAGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.08
10 15 0.58
11 7 0.27
12 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAAAAATT
Found at i:2680982 original size:30 final size:31
Alignment explanation
Indices: 2680948--2681006 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
2680938 ATCGTGTAGA
2680948 CATATCATTT-CCATACCTTTATCACATAAG
1 CATATCATTTCCCATACCTTTATCACATAAG
2680978 CATATCATTTCCCATACCTTTATCACATA
1 CATATCATTTCCCATACCTTTATCACATA
2681007 TCTTATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (31 bp):
CATATCATTTCCCATACCTTTATCACATAAG
Found at i:2681077 original size:25 final size:25
Alignment explanation
Indices: 2681049--2681110 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
2681039 CTTAATGCAT
2681049 ATAATATGAATTCATG-TCATGTATC
1 ATAATATGAATT-ATGTTCATGTATC
* *
2681074 ATAATATGAAATGTGTTCATGTATC
1 ATAATATGAATTATGTTCATGTATC
*
2681099 AAAATATTGAAT
1 ATAATA-TGAAT
2681111 CTAGACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.81
26 4 0.13
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (25 bp):
ATAATATGAATTATGTTCATGTATC
Found at i:2687712 original size:30 final size:31
Alignment explanation
Indices: 2687678--2687737 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2687668 TATATCGTGT
*
2687678 ACATATCATTT-CCATACCTTTATCACATAA
1 ACATATCATTTCCCATACCTTTAGCACATAA
2687708 ACATATCATTTCCCATACCTTTAGCACATA
1 ACATATCATTTCCCATACCTTTAGCACATA
2687738 GCTTATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (31 bp):
ACATATCATTTCCCATACCTTTAGCACATAA
Found at i:2687813 original size:25 final size:25
Alignment explanation
Indices: 2687780--2687841 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
2687770 CTTAATGCAT
2687780 ATAATATGAATTCATG-TCATGTATC
1 ATAATATGAATT-ATGATCATGTATC
* *
2687805 ATAATATGAAATGTGATCATGTATC
1 ATAATATGAATTATGATCATGTATC
*
2687830 AAAATATTGAAT
1 ATAATA-TGAAT
2687842 CTAGACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.81
26 4 0.13
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (25 bp):
ATAATATGAATTATGATCATGTATC
Found at i:2688211 original size:19 final size:19
Alignment explanation
Indices: 2688187--2688238 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
2688177 CTCAAGGGGG
2688187 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
2688206 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
2688225 TGCATCGATGCACT
1 TGCATCGATGCACT
2688239 AATGGCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:2690299 original size:30 final size:30
Alignment explanation
Indices: 2690262--2690329 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
2690252 AAATAGTGAT
2690262 CCGATTATAGGGTGTTGCTTTGTTGAGTGC
1 CCGATTATAGGGTGTTGCTTTGTTGAGTGC
* *
2690292 TCGATTATAGGGTGTTGCTTTGTTGAGTTC
1 CCGATTATAGGGTGTTGCTTTGTTGAGTGC
2690322 CCGATTAT
1 CCGATTAT
2690330 CAGAAGTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.15, C:0.13, G:0.29, T:0.43
Consensus pattern (30 bp):
CCGATTATAGGGTGTTGCTTTGTTGAGTGC
Found at i:2698946 original size:18 final size:18
Alignment explanation
Indices: 2698923--2698962 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2698913 ACCACTGATG
*
2698923 ATGCGCCTTGAATGATAC
1 ATGCGCCTTGAATGATAA
2698941 ATGCGCCTTGAATGATAA
1 ATGCGCCTTGAATGATAA
2698959 ATGC
1 ATGC
2698963 ACCAGGGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (18 bp):
ATGCGCCTTGAATGATAA
Found at i:2719135 original size:21 final size:21
Alignment explanation
Indices: 2719094--2719136 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2719084 GATAGTTTAG
**
2719094 GATCGATCCTTTTGGTCAAGA
1 GATCGATCCTTTTGGAAAAGA
2719115 GATCGAT-CTATTTGGAAAAGA
1 GATCGATCCT-TTTGGAAAAGA
2719136 G
1 G
2719137 CAATCCTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (21 bp):
GATCGATCCTTTTGGAAAAGA
Found at i:2719143 original size:70 final size:69
Alignment explanation
Indices: 2718997--2719192 Score: 189
Period size: 70 Copynumber: 2.8 Consensus size: 69
2718987 GAAAAAGAAT
* * * * * *
2718997 CAATCCTTTGTATAACACAATGTTTGGGATCGATCTTTTTGCTCGGGGATCGATCATATTGGAAA
1 CAATCCTTTGTACAACAGAA-GTTTAGGATCGATCCTTTTGGTCAGGGATCGATCATATTGGAAA
* *
2719062 GGGAT
65 GAGAG
* *
2719067 CGATCCTTTGTACAACAGATAGTTTAGGATCGATCCTTTTGGTCAAGAGATCGATC-TATTTGGA
1 CAATCCTTTGTACAACAGA-AGTTTAGGATCGATCCTTTTGGTC-AGGGATCGATCATA-TTGGA
2719131 AA-AGAG
63 AAGAGAG
* * * **
2719137 CAATCCTTTGCACAACAGAAATTTTGAGATTAATCCTTTTGGTCGAGGGATCGATC
1 CAATCCTTTGTACAACAGAAGTTTAG-GATCGATCCTTTTGGTC-AGGGATCGATC
2719193 CTTTTTCTGG
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
69 5 0.05
70 82 0.79
71 17 0.16
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (69 bp):
CAATCCTTTGTACAACAGAAGTTTAGGATCGATCCTTTTGGTCAGGGATCGATCATATTGGAAAG
AGAG
Found at i:2726031 original size:21 final size:22
Alignment explanation
Indices: 2726005--2726063 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
2725995 TAAAAAGTGT
*
2726005 GGGATCAATTCTTTTGGT-CGA
1 GGGATCGATTCTTTTGGTCCGA
*
2726026 GGGATCGATTCTTTT-TTCCGA
1 GGGATCGATTCTTTTGGTCCGA
*
2726047 GAGATCGATTCTTTTGG
1 GGGATCGATTCTTTTGG
2726064 AAAGGGATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.41
Consensus pattern (22 bp):
GGGATCGATTCTTTTGGTCCGA
Found at i:2726131 original size:21 final size:22
Alignment explanation
Indices: 2726096--2726153 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 22
2726086 ACAAAAGTTT
* *
2726096 GGGATCAATCTTTTTGGT-CGA
1 GGGATCGATCCTTTTGGTCCGA
*
2726117 TGGATCGATCCTTTT--TCCGA
1 GGGATCGATCCTTTTGGTCCGA
2726137 GGGATCGATCCTTTTGG
1 GGGATCGATCCTTTTGG
2726154 AAAGGGAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.03
20 17 0.57
21 12 0.40
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.38
Consensus pattern (22 bp):
GGGATCGATCCTTTTGGTCCGA
Found at i:2726220 original size:91 final size:91
Alignment explanation
Indices: 2725933--2726223 Score: 326
Period size: 91 Copynumber: 3.2 Consensus size: 91
2725923 TCTTTTTTTT
* ** *
2725933 AGGGATCGA-T-CTTTTTCCCAGATGAATCGATCCTTTT-GAAAATGAATCGATCCTTTGTATAA
1 AGGGATCGATTCCTTTTTCCGAGA-G-ATCGATCCTTTTGGAAAGGGAA-CGATCCTTTGCA-AA
*
2725995 T-AAAAAGTGTGGGATCAATTCTTTTGGTCG
62 TCAAAAAGTTTGGGATCAATT-TTTTGGTCG
* * * * *
2726025 AGGGATCGATTCTTTTTTCCGAGAGATCGATTCTTTTGGAAAGGGATCGATCCTTTGGAAAAC-A
1 AGGGATCGATTCCTTTTTCCGAGAGATCGATCCTTTTGGAAAGGGAACGATCCTTTGCAAATCAA
2726089 AAAGTTTGGGATCAATCTTTTTGGTCG
66 AAAGTTTGGGATCAAT-TTTTTGGTCG
* * *
2726116 ATGGATCGA-TCCTTTTTCCGAGGGATCGATCCTTTTGGAAAGGGAACGATCCTTTGCACATCAA
1 AGGGATCGATTCCTTTTTCCGAGAGATCGATCCTTTTGGAAAGGGAACGATCCTTTGCAAATCAA
* * *
2726180 AAAGTTTTGGATCAATGTATTTGGTCA
66 AAAGTTTGGGATCAAT-TTTTTGGTCG
2726207 AGGGATC-ATTCCTTTTT
1 AGGGATCGATTCCTTTTT
2726224 TTGGGAATGA
Statistics
Matches: 170, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
90 47 0.28
91 73 0.43
92 32 0.19
93 8 0.05
94 10 0.06
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (91 bp):
AGGGATCGATTCCTTTTTCCGAGAGATCGATCCTTTTGGAAAGGGAACGATCCTTTGCAAATCAA
AAAGTTTGGGATCAATTTTTTGGTCG
Found at i:2728586 original size:59 final size:59
Alignment explanation
Indices: 2728487--2728616 Score: 188
Period size: 59 Copynumber: 2.2 Consensus size: 59
2728477 CAGCAGGCTG
* ** *
2728487 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGATTACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
** * *
2728546 CATATTCGGGATTGTACTTAAGGATACCTAGTACAGATGGTGGGCACGGCCTTATGTGT
1 CATATTCGGGATTACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
2728605 CATATTCGGGAT
1 CATATTCGGGAT
2728617 AGCACTACAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (59 bp):
CATATTCGGGATTACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
Found at i:2730439 original size:35 final size:34
Alignment explanation
Indices: 2730400--2730476 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 34
2730390 GGGGTTGGTC
** *
2730400 ATATAATGAAGTATTTTTGGAATTTGAGGTTTATA
1 ATATAATGAAACA-TTTTGGAATTTGAGGTTTAGA
*
2730435 ATATAATTGAAACATTTTGGAATTTGGGGTTTAGA
1 ATATAA-TGAAACATTTTGGAATTTGAGGTTTAGA
2730470 ATATAAT
1 ATATAAT
2730477 TGATGTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.03
35 31 0.84
36 5 0.14
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (34 bp):
ATATAATGAAACATTTTGGAATTTGAGGTTTAGA
Found at i:2731349 original size:31 final size:31
Alignment explanation
Indices: 2731312--2731371 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
2731302 AATGTTATTG
* * *
2731312 CCATTATTTTAAAATAATCGTGATTTTAATA
1 CCATTATATTAAAATAATCATAATTTTAATA
2731343 CCATTATATTAAAATAATCATAATTTTAA
1 CCATTATATTAAAATAATCATAATTTTAA
2731372 CGTCATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (31 bp):
CCATTATATTAAAATAATCATAATTTTAATA
Found at i:2731692 original size:31 final size:31
Alignment explanation
Indices: 2731655--2731736 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
2731645 ATTTTAATAA
* * *
2731655 AATATAATGACGTTAAAATTATGATTATTTT
1 AATATAATGGCGTTAAAATTACGAATATTTT
* ** *
2731686 ATTATAATGGTATTAAAATCACGAATATTTT
1 AATATAATGGCGTTAAAATTACGAATATTTT
*
2731717 AATATAATGGCGATAAAATT
1 AATATAATGGCGTTAAAATT
2731737 TTCTTTTCAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (31 bp):
AATATAATGGCGTTAAAATTACGAATATTTT
Found at i:2735547 original size:18 final size:18
Alignment explanation
Indices: 2735524--2735562 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2735514 TTCAGTAATC
2735524 TTATTCTCACCGATAAAT
1 TTATTCTCACCGATAAAT
* *
2735542 TTATTCTCGCCGATAATT
1 TTATTCTCACCGATAAAT
2735560 TTA
1 TTA
2735563 AATTTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.44
Consensus pattern (18 bp):
TTATTCTCACCGATAAAT
Found at i:2737602 original size:7 final size:7
Alignment explanation
Indices: 2737578--2737633 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
2737568 CTTTGGACCT
2737578 ATAAA-A
1 ATAAATA
2737584 ATAAA-A
1 ATAAATA
*
2737590 AAAAATA
1 ATAAATA
2737597 ATAAATA
1 ATAAATA
2737604 ATAAATA
1 ATAAATA
2737611 ATAAAATA
1 AT-AAATA
*
2737619 ATGAATA
1 ATAAATA
2737626 ATATAATA
1 ATA-AATA
2737634 CTATTGTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 10 0.23
7 22 0.51
8 11 0.26
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (7 bp):
ATAAATA
Found at i:2737619 original size:15 final size:15
Alignment explanation
Indices: 2737578--2737633 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
2737568 CTTTGGACCT
2737578 ATAAA-AATAAAA-A
1 ATAAATAATAAAATA
2737591 A-AAATAAT-AAATA
1 ATAAATAATAAAATA
2737604 ATAAATAATAAAATA
1 ATAAATAATAAAATA
* *
2737619 ATGAATAATATAATA
1 ATAAATAATAAAATA
2737634 CTATTGTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 7 0.19
15 18 0.49
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAATAATAAAATA
Found at i:2738190 original size:30 final size:30
Alignment explanation
Indices: 2738069--2738206 Score: 117
Period size: 30 Copynumber: 4.7 Consensus size: 30
2738059 ACAATAGATC
*
2738069 TAGCAAAAACATAAACTTAAAGGACTAAAA
1 TAGCAAAAACAGAAACTTAAAGGACTAAAA
* *
2738099 TGGTAAAAACAGAAACTTACAAGG-CTAAAA
1 TAGCAAAAACAGAAACTTA-AAGGACTAAAA
* * * * *
2738129 CAACTAAAACAGAAATTTATAGGA-TATAAA
1 TAGCAAAAACAGAAACTTAAAGGACTA-AAA
*
2738159 TAGCAAAAATAGAAACTT-AAGTGACTAAAA
1 TAGCAAAAACAGAAACTTAAAG-GACTAAAA
2738189 TA--AAATAACAGAAA-TTAA
1 TAGCAAA-AACAGAAACTTAA
2738207 GGTGTCAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
28 5 0.06
29 15 0.18
30 58 0.69
31 6 0.07
ACGTcount: A:0.58, C:0.11, G:0.12, T:0.20
Consensus pattern (30 bp):
TAGCAAAAACAGAAACTTAAAGGACTAAAA
Found at i:2739248 original size:25 final size:25
Alignment explanation
Indices: 2739218--2739278 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
2739208 TTTAAAAAGA
2739218 AAATCATTTTCAATTTTAAATTTTG
1 AAATCATTTTCAATTTTAAATTTTG
2739243 AAATCATTTTCAATTTTAAATTTTG
1 AAATCATTTTCAATTTTAAATTTTG
*
2739268 AAATTATTTTC
1 AAATCATTTTC
2739279 TTATATTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.52
Consensus pattern (25 bp):
AAATCATTTTCAATTTTAAATTTTG
Found at i:2739257 original size:18 final size:17
Alignment explanation
Indices: 2739230--2739263 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2739220 ATCATTTTCA
2739230 ATTTTAAATTTTGAAATC
1 ATTTTAAATTTT-AAATC
*
2739248 ATTTTCAATTTTAAAT
1 ATTTTAAATTTTAAAT
2739264 TTTGAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTTAAATTTTAAATC
Found at i:2740514 original size:21 final size:21
Alignment explanation
Indices: 2740484--2740532 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2740474 TGATAATATA
* *
2740484 GATACAACTGTTCACGGTATT
1 GATACTACTGTTCACGGTATC
*
2740505 GATACTACTGTTCATGGTATC
1 GATACTACTGTTCACGGTATC
2740526 GATACTA
1 GATACTA
2740533 GTGTAGTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (21 bp):
GATACTACTGTTCACGGTATC
Found at i:2767629 original size:20 final size:21
Alignment explanation
Indices: 2767606--2767654 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
2767596 TTTTTTATTT
2767606 TCTTTTAGTGGTACTTGTTA-
1 TCTTTTAGTGGTACTTGTTAG
2767626 TCTTTTAGTGGTACTTGTTAG
1 TCTTTTAGTGGTACTTGTTAG
2767647 T-TTTTAGT
1 TCTTTTAGT
2767655 TGTTAGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.14, C:0.08, G:0.20, T:0.57
Consensus pattern (21 bp):
TCTTTTAGTGGTACTTGTTAG
Found at i:2771372 original size:39 final size:39
Alignment explanation
Indices: 2771317--2771393 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
2771307 CCTATTATAA
*
2771317 TAAAGACCAGTTTGGAAAATGCCTTTTGATTTGATGTAT
1 TAAAGACCAGTCTGGAAAATGCCTTTTGATTTGATGTAT
*
2771356 TAAAGACCAGTCTGGAAACTGCCTTTTGATTTGATGTA
1 TAAAGACCAGTCTGGAAAATGCCTTTTGATTTGATGTA
2771394 CGATGCTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (39 bp):
TAAAGACCAGTCTGGAAAATGCCTTTTGATTTGATGTAT
Found at i:2782654 original size:44 final size:45
Alignment explanation
Indices: 2782474--2782665 Score: 251
Period size: 45 Copynumber: 4.3 Consensus size: 45
2782464 ACATGTACTT
* * *
2782474 ATATTCATTTCAACTATAGTATACTTTTATGTTGATAATGTATCC
1 ATATACATTTCAACTATAGTATACTTTTATGTTGATAATGCACCC
* * * * * *
2782519 ATATACATCTCAACCATAATATACTTTTCTGTTGATAATGTACCT
1 ATATACATTTCAACTATAGTATACTTTTATGTTGATAATGCACCC
* * *
2782564 ATATACATTTCAACTCTTGCATACTTTTATGTTGATAATGCACCC
1 ATATACATTTCAACTATAGTATACTTTTATGTTGATAATGCACCC
*
2782609 ATATGCATTTCAACTATAGTATACTTTT-TGTTGATAATGCACCC
1 ATATACATTTCAACTATAGTATACTTTTATGTTGATAATGCACCC
*
2782653 ATATGCATTTCAA
1 ATATACATTTCAA
2782666 GTTTGGTGTC
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
44 29 0.23
45 98 0.77
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (45 bp):
ATATACATTTCAACTATAGTATACTTTTATGTTGATAATGCACCC
Found at i:2782693 original size:89 final size:90
Alignment explanation
Indices: 2782508--2782706 Score: 213
Period size: 89 Copynumber: 2.2 Consensus size: 90
2782498 TTTTATGTTG
* * * * * *
2782508 ATAATGTATCCATATACATCTCAACCATAATATACTTTTCTGTTGATAATGTACCTATATACATT
1 ATAATGCAACCATATGCATTTCAACCATAATATACTTTTCTGTTGATAATGCACCCATATACATT
* ***
2782573 TCAACTCTTGCATACTTTTATGTTG
66 TCAACTCTTGCATACTTTCATGCCA
* * * *
2782598 ATAATGCACCCATATGCATTTCAACTATAGTATACTTTT-TGTTGATAATGCACCCATATGCATT
1 ATAATGCAACCATATGCATTTCAACCATAATATACTTTTCTGTTGATAATGCACCCATATACATT
* ** *
2782662 TCAAGT-TTGGTGTCCTTTCATGCCA
66 TCAACTCTT-GCATACTTTCATGCCA
2782687 ATAATGCAACCATATGCATT
1 ATAATGCAACCATATGCATT
2782707 ATTCTTTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
88 2 0.02
89 55 0.61
90 33 0.37
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (90 bp):
ATAATGCAACCATATGCATTTCAACCATAATATACTTTTCTGTTGATAATGCACCCATATACATT
TCAACTCTTGCATACTTTCATGCCA
Found at i:2783238 original size:22 final size:21
Alignment explanation
Indices: 2783197--2783257 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
2783187 ATGGCCCTCC
2783197 GGTATCGATAC-CCCTACTAT
1 GGTATCGATACACCCTACTAT
*
2783217 GGTATCGATACTACCCTTCTAT
1 GGTATCGATAC-ACCCTACTAT
*
2783239 CGTATCG-TACACCCTACTA
1 GGTATCGATACACCCTACTA
2783258 GTATCACAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 19 0.53
21 3 0.08
22 14 0.39
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (21 bp):
GGTATCGATACACCCTACTAT
Found at i:2783318 original size:21 final size:21
Alignment explanation
Indices: 2783292--2783351 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
2783282 AAATGACCCC
2783292 GTATCGATACCCT-TACAATAG
1 GTATCGATACCCTATACAAT-G
*
2783313 GTATCGATACCACTATACTATG
1 GTATCGATACC-CTATACAATG
*
2783335 GTACCGATACCCCTATA
1 GTATCGATA-CCCTATA
2783352 TGATATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 11 0.32
22 16 0.47
23 7 0.21
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (21 bp):
GTATCGATACCCTATACAATG
Found at i:2783349 original size:95 final size:94
Alignment explanation
Indices: 2783198--2783420 Score: 247
Period size: 95 Copynumber: 2.4 Consensus size: 94
2783188 TGGCCCTCCG
* * * ** * *
2783198 GTATCGATACCCCTACTATGGTATCGATACTACCCTTCTATCGTATCGTACACCCTACTA-G-TA
1 GTATCGATACCCTTACAATGGTATCGATACCACTATACTATCGTACCGTACACCCTA-TATGATA
*
2783261 T-CACAACCAAAATTAGATTCGAAATGACCCC
65 TACAC-ACCAAAATTAGA-TCGAAATGACCCA
*
2783292 GTATCGATACCCTTACAATAGGTATCGATACCACTATACTATGGTACCGATAC-CCCTATATGAT
1 GTATCGATACCCTTACAAT-GGTATCGATACCACTATACTATCGTACCG-TACACCCTATATGAT
* ** *
2783356 ATATACACCAAAATTAGATCGATGTTACCCA
64 ATACACACCAAAATTAGATCGAAATGACCCA
*
2783387 GTATCGATACCCTTACCATGGTATCGATACCACT
1 GTATCGATACCCTTACAATGGTATCGATACCACT
2783421 TCATTAGGTA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
94 34 0.31
95 56 0.51
96 18 0.16
97 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (94 bp):
GTATCGATACCCTTACAATGGTATCGATACCACTATACTATCGTACCGTACACCCTATATGATAT
ACACACCAAAATTAGATCGAAATGACCCA
Found at i:2789379 original size:45 final size:46
Alignment explanation
Indices: 2789330--2789539 Score: 232
Period size: 45 Copynumber: 4.7 Consensus size: 46
2789320 CATCTTTTCG
** *
2789330 GTTGATAATGCACCCATATGA-AAATCAATTATAGTATACTTTTAT
1 GTTGATAATGCACCCATATGACATTTCAACTATAGTATACTTTTAT
* * * *
2789375 GTTGATAATGTACCCATAT-ACATCTCAACCATAGTATACTTTTCT
1 GTTGATAATGCACCCATATGACATTTCAACTATAGTATACTTTTAT
* * * * * *
2789420 GTTGATAATGTACTCATAT-ACATTTCAACTCTAGCATATTTTTTT
1 GTTGATAATGCACCCATATGACATTTCAACTATAGTATACTTTTAT
*
2789465 GTTGATAATGCACCCATATG-CATTTCAACTATAGTATGCTTTTAT
1 GTTGATAATGCACCCATATGACATTTCAACTATAGTATACTTTTAT
* * *
2789510 TTTGATAATGCACCTATATG-TATTTCAACT
1 GTTGATAATGCACCCATATGACATTTCAACT
2789540 TTGGCATCCT
Statistics
Matches: 140, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
44 1 0.01
45 139 0.99
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (46 bp):
GTTGATAATGCACCCATATGACATTTCAACTATAGTATACTTTTAT
Found at i:2791866 original size:95 final size:94
Alignment explanation
Indices: 2791740--2791962 Score: 383
Period size: 95 Copynumber: 2.4 Consensus size: 94
2791730 AGACTGACGA
* * *
2791740 GGTAGTATCGATACCATGGTAAGGGTATCGATACCATGTAACATCGAATCTAAAATTGGTATTGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATTAA
*
2791805 TACCGAAAGGGGGTATCAATACCATAGTAT
66 TACCGAAA-GGGGTATCAATACCATAATAT
* *
2791835 GGTAGTATCGATACCGTGGCAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATTAA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATTAA
2791900 TACCGAAAGGGGTATCAATACCATAATAT
66 TACCGAAAGGGGTATCAATACCATAATAT
2791929 GGTAGTATCGATACCATGGTAAGGGTATCGATAC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATAC
2791963 TGAAGAGCCA
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 52 0.43
95 68 0.57
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (94 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAATCTAAAATTGGTATTAA
TACCGAAAGGGGTATCAATACCATAATAT
Found at i:2792362 original size:59 final size:58
Alignment explanation
Indices: 2792296--2792619 Score: 409
Period size: 59 Copynumber: 5.6 Consensus size: 58
2792286 GTGTAAAAAG
* *
2792296 TTAAGAAATTTATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAACATA
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAA-ATA
**
2792355 TTAAGAAATTCATACTAAGTGTATGAATTTCAATATTGGGCACTTTGTGTGCAAAAGTA
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAA-TA
* * *
2792414 TTAAGAAATTCAAACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGCAAAAATG
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGC-AAAATA
* * * * *
2792473 TTAAGAAATTCATACTAAGTTTATAAATTTCCGTATTGGGAAC--TATGTGCAAAAATG
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGC-AAAATA
* * * * *
2792530 TTAAGAAATTCATACTAAGTGTATGGATTTCCGTATTGAGCACTTTATGTGTAAAAAA
1 TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAATA
* * * *
2792588 ATGAGAAACTCATACTAAGTGTATGGATTTCC
1 TTAAGAAATTCATACTAAGTGTATGAATTTCC
2792620 ATATGAGAAA
Statistics
Matches: 235, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
57 50 0.21
58 34 0.14
59 147 0.63
60 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (58 bp):
TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAATA
Found at i:2796272 original size:28 final size:28
Alignment explanation
Indices: 2796218--2796287 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
2796208 AAGGGAAATA
* *
2796218 AATGATATTTTAGAAAATGGGTTTTA-T
1 AATGATATATTAGTAAATGGGTTTTATT
* * *
2796245 AATGATATGTTAGTATATTGGTGTTTATT
1 AATGATATATTAGTAAATGGGT-TTTATT
2796274 AATGAT-TATTAGTA
1 AATGATATATTAGTA
2796288 GTTTTGACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.50
28 11 0.31
29 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (28 bp):
AATGATATATTAGTAAATGGGTTTTATT
Found at i:2797235 original size:59 final size:59
Alignment explanation
Indices: 2797142--2797601 Score: 564
Period size: 59 Copynumber: 7.8 Consensus size: 59
2797132 ATGGCACTAA
*
2797142 GTGTGTAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
2797200 GTGTGCAAAAATGTTAAGAAATTCATAGTAGGTGTATGAATTTTCTTATTGGGCAGTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *** * *
2797259 GTGTGCAAAATTGTTAAGAAATTCATACTAAGTGTATGAATTTATATATTGAGAACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * *
2797318 GTATGCAGAAATGTTAAGAAATTCATACAAAGTGTACGACTTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
2797377 GTGTGCAAAAATGTTAAGAAATTCATACCAAGTGTATAAATTTCCGTATTGGACACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* ** ** *
2797436 GTGTGCAAAAATGTTAATAAATAAATACTAAGTGTATGAATTTATGTATTGGGCACTCT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
2797495 GTGTGTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTACTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * * * * * *
2797554 ATGTTCAAAAA-GATAAGAAACTCATGCTATGTGCATGGATTTTCGTAT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
2797602 GGGAAATATA
Statistics
Matches: 341, Mismatches: 60, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
58 40 0.12
59 301 0.88
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:2811176 original size:59 final size:59
Alignment explanation
Indices: 2811055--2811178 Score: 169
Period size: 59 Copynumber: 2.1 Consensus size: 59
2811045 TGCTAACCCA
* * * * *
2811055 AATATGATACATATGGTCATGCCCACTATATGCACTAGGTATCCTTTAATTCAATCTTG
1 AATATGACAAATAAGGTCATGCCCACAATATGCACTAGGTATCCTTTAATTCAATCTCG
* *
2811114 AATATGACAAATAAGGTCATGCCCACAATATGCACTAGGTATCCTTTAGTGT-AGTCTCG
1 AATATGACAAATAAGGTCATGCCCACAATATGCACTAGGTATCCTTTAAT-TCAATCTCG
2811173 AATATG
1 AATATG
2811179 CAGCATGCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 56 0.98
60 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (59 bp):
AATATGACAAATAAGGTCATGCCCACAATATGCACTAGGTATCCTTTAATTCAATCTCG
Found at i:2830789 original size:23 final size:23
Alignment explanation
Indices: 2830739--2830839 Score: 106
Period size: 23 Copynumber: 4.7 Consensus size: 23
2830729 AGACCCCGTG
2830739 GAGGGTATCGATACCC--TC--A
1 GAGGGTATCGATACCCATTCAAA
*
2830758 GGGGGTATCGATACCCATTCAAA
1 GAGGGTATCGATACCCATTCAAA
* * *
2830781 GAGGGTATCGATGCCTATT-ATA
1 GAGGGTATCGATACCCATTCAAA
*
2830803 G-GGGTATCGATACCTATTCAAA
1 GAGGGTATCGATACCCATTCAAA
*
2830825 GGGGGTATCGATACC
1 GAGGGTATCGATACC
2830840 AATCTTAGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.22
21 18 0.26
22 6 0.09
23 30 0.43
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (23 bp):
GAGGGTATCGATACCCATTCAAA
Found at i:2830809 original size:21 final size:22
Alignment explanation
Indices: 2830759--2830839 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 22
2830749 ATACCCTCAG
*
2830759 GGGGTATCGATACCCATTCAAA
1 GGGGTATCGATACCTATTCAAA
* *
2830781 GAGGGTATCGATGCCTATT-ATA
1 G-GGGTATCGATACCTATTCAAA
2830803 GGGGTATCGATACCTATTCAAA
1 GGGGTATCGATACCTATTCAAA
2830825 GGGGGTATCGATACC
1 -GGGGTATCGATACC
2830840 AATCTTAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.31
22 6 0.12
23 29 0.57
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (22 bp):
GGGGTATCGATACCTATTCAAA
Found at i:2830814 original size:44 final size:44
Alignment explanation
Indices: 2830739--2830859 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
2830729 AGACCCCGTG
*
2830739 GAGGGTATCGATACC---CTCAGGGGGTATCGATACCCATTCAAA
1 GAGGGTATCGATACCAATCTTA-GGGGTATCGATACCCATTCAAA
* * *
2830781 GAGGGTATCGATGCCTAT-TATAGGGGTATCGATACCTATTCAAA
1 GAGGGTATCGATACCAATCT-TAGGGGTATCGATACCCATTCAAA
* *
2830825 GGGGGTATCGATACCAATCTTAGGGGTATTGATAC
1 GAGGGTATCGATACCAATCTTAGGGGTATCGATAC
2830860 TCTATGCACA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
42 14 0.21
44 51 0.76
45 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
GAGGGTATCGATACCAATCTTAGGGGTATCGATACCCATTCAAA
Done.