Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_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: 3884024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 18
Found at i:512554 original size:45 final size:45
Alignment explanation
Indices: 512504--512801 Score: 470
Period size: 45 Copynumber: 6.6 Consensus size: 45
512494 AACTGTTCAT
*
512504 AAGGCATGAAAGGATGCCATAAATGAAATGCATAATGGTGCATTA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
*
512549 AAGGCATGAAAGGATGCCATAAATGAAATGCATATCGGTGCATTA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
* *
512594 AAGGCATGAAAGGATGCCATAAATGAAATTCATAACGGTGCATTC
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
** *
512639 AAGGCATGAAAGGATGCCATAAATGAAATTTATAACGGTGTATTA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
*
512684 AAGGCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
* * * * *
512729 AAGGCATGAACGAATGCCATAAATAAAATGCATAACAGTTCATTA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
*
512774 AAGGCATGAAAGGATGCCCTAAATGAAA
1 AAGGCATGAAAGGATGCCATAAATGAAA
512802 ATAATGAATA
Statistics
Matches: 231, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 231 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (45 bp):
AAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTA
Found at i:521987 original size:14 final size:14
Alignment explanation
Indices: 521964--522007 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
521954 TATACGCATA
521964 TTAATTTTCAAAAC
1 TTAATTTTCAAAAC
**
521978 TTGTTTTTCAAATA-
1 TTAATTTTCAAA-AC
521992 TTAATTTTCAAAAC
1 TTAATTTTCAAAAC
522006 TT
1 TT
522008 TTCCCAGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 1 0.04
14 22 0.92
15 1 0.04
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAATTTTCAAAAC
Found at i:523410 original size:17 final size:15
Alignment explanation
Indices: 523382--523422 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
523372 TTGTTTTAAC
523382 ATTTTGGATGTTTGA
1 ATTTTGGATGTTTGA
523397 ATTTATGGATTGTTTGA
1 ATTT-TGGA-TGTTTGA
523414 A-TTTGGATG
1 ATTTTGGATG
523423 CTTAATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
16 6 0.25
17 8 0.33
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (15 bp):
ATTTTGGATGTTTGA
Found at i:527801 original size:19 final size:20
Alignment explanation
Indices: 527777--527826 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
527767 CGATGCAATT
*
527777 GGTATCGATACTA-AGAGAG
1 GGTATCGATACTATAGAGAA
*
527796 GGTATCGATACTATGGAGAA
1 GGTATCGATACTATAGAGAA
527816 GGTATCGATAC
1 GGTATCGATAC
527827 CAATGATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (20 bp):
GGTATCGATACTATAGAGAA
Found at i:528290 original size:45 final size:45
Alignment explanation
Indices: 528239--528519 Score: 397
Period size: 45 Copynumber: 6.2 Consensus size: 45
528229 TGATTACCAA
* *
528239 ATGCCATAAATGAAACGAATAACGGTGTATTAAAGGCATGAAAGG
1 ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAGG
* * *
528284 ATGCCATAAATGAAATGCATAACGGTGCATTAAATGCATAAAAGTG
1 ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAG-G
* * *
528330 -TGCCATAAATAAAATGCATAACTGTGCATTAAAGGCATGAAAGG
1 ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAGG
528374 ATGCCA-ATAATGAAAT-ACATAACGGTGCATTAAAGGCATGAAAGG
1 ATGCCATA-AATGAAATGA-ATAACGGTGCATTAAAGGCATGAAAGG
* * * *
528419 ATGCCATAAATGAAATGTATAATGGTACATTAAAGACATGAAAGG
1 ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAGG
528464 ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAGG
1 ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAGG
*
528509 ATGCCCTAAAT
1 ATGCCATAAAT
528520 AAAAATAATG
Statistics
Matches: 209, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.01
45 205 0.98
46 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.22
Consensus pattern (45 bp):
ATGCCATAAATGAAATGAATAACGGTGCATTAAAGGCATGAAAGG
Found at i:529727 original size:20 final size:20
Alignment explanation
Indices: 529702--529751 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
529692 GGAATCCATG
529702 GTATCGATACTTTTCTTTTA
1 GTATCGATACTTTTCTTTTA
529722 GTATCGATACTTTTCTTTTA
1 GTATCGATACTTTTCTTTTA
*
529742 GTATCTATAC
1 GTATCGATAC
529752 CCCAACAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
GTATCGATACTTTTCTTTTA
Found at i:530342 original size:14 final size:14
Alignment explanation
Indices: 530323--530350 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
530313 TAAATTTTGA
530323 TTTTCCCTTTTCCT
1 TTTTCCCTTTTCCT
530337 TTTTCCCTTTTCCT
1 TTTTCCCTTTTCCT
530351 AATGCCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCCCTTTTCCT
Found at i:542517 original size:37 final size:36
Alignment explanation
Indices: 542476--542547 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
542466 TAAAAATATA
* * * *
542476 TTAAAAATCTTAAACCCTAACCCCTAAACACTAAACC
1 TTAAAAATCCTAAAACATAAACCCTAAAC-CTAAACC
*
542513 TTAAACATCCTAAAACATAAACCCTAAACCTAAAC
1 TTAAAAATCCTAAAACATAAACCCTAAACCTAAAC
542548 TCTAACTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 6 0.20
37 24 0.80
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (36 bp):
TTAAAAATCCTAAAACATAAACCCTAAACCTAAACC
Found at i:542567 original size:7 final size:7
Alignment explanation
Indices: 542486--542567 Score: 60
Period size: 7 Copynumber: 11.6 Consensus size: 7
542476 TTAAAAATCT
542486 TAAACCC
1 TAAACCC
*
542493 TAACCCC
1 TAAACCC
*
542500 TAAACAC
1 TAAACCC
*
542507 TAAACCT
1 TAAACCC
542514 TAAACATCC
1 TAAAC--CC
* *
542523 TAAAACA
1 TAAACCC
542530 TAAACCC
1 TAAACCC
542537 TAAA-CC
1 TAAACCC
*
542543 TAAACTC
1 TAAACCC
*
542550 T-AACTCT
1 TAAAC-CC
542557 TAAACCC
1 TAAACCC
542564 TAAA
1 TAAA
542568 TTCTTGATCC
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
6 9 0.16
7 39 0.70
8 3 0.05
9 5 0.09
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:542860 original size:21 final size:21
Alignment explanation
Indices: 542834--542887 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
542824 TGTAAAATTA
*
542834 AACTTGTTATCGATCGACACT
1 AACTTGTTATCGACCGACACT
542855 AACTTGTTATCGACCGACACT
1 AACTTGTTATCGACCGACACT
542876 AACTTGTTATCG
1 AACTTGTTATCG
542888 GATTTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (21 bp):
AACTTGTTATCGACCGACACT
Found at i:544406 original size:43 final size:43
Alignment explanation
Indices: 544347--544617 Score: 425
Period size: 43 Copynumber: 6.3 Consensus size: 43
544337 GTTTTGTTGG
* *
544347 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCA
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
* * *
544390 ACAAACGCTGTAATAGGTGTTGAGATTTAGCGACGTTTTTCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
*
544433 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
*
544476 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
**
544519 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTTC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
* * *
544562 ACAAACGCCGTAATAGGTCTTGAGATTTAACGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
*
544605 ACAAACACCGCAA
1 ACAAACGCCGCAA
544618 AAGATCTAGT
Statistics
Matches: 209, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 209 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
Found at i:544454 original size:86 final size:86
Alignment explanation
Indices: 544347--544656 Score: 444
Period size: 86 Copynumber: 3.6 Consensus size: 86
544337 GTTTTGTTGG
*
544347 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCTGTAATAGGTGTTG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGTAATAGGTGTTG
*
544412 AGATTTAGCGACGTTTTTCCC
66 AGATTTAGCGGCGTTTTTCCC
* *
544433 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGTAATAGGTGTTG
*
544498 ATATTTAGCGGCGTTTTTCCC
66 AGATTTAGCGGCGTTTTTCCC
* * *
544519 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTTC-ACAAACGCCGTAATAGGTCTT
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTTCCAACAAACGCCGTAATAGGTGTT
*
544583 GAGATTTAACGGCGTTTTTCCC
65 GAGATTTAGCGGCGTTTTTCCC
* * * * * * **
544605 ACAAACACCGCAAAAGATCTAG-TATATAGCGGCGTTTTTTGAACAAACGCCG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCG
544657 CAAAAGGTCA
Statistics
Matches: 203, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
84 6 0.03
85 20 0.10
86 171 0.84
87 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (86 bp):
ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGTAATAGGTGTTG
AGATTTAGCGGCGTTTTTCCC
Found at i:544502 original size:129 final size:129
Alignment explanation
Indices: 544347--544664 Score: 458
Period size: 129 Copynumber: 2.5 Consensus size: 129
544337 GTTTTGTTGG
* *
544347 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCTGTAATAGGTGTTG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTG
* * *
544412 AGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCC
66 AGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCC
*
544476 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTG
* ** *
544541 AGATTTAGCGGCGTTTTTTTCACAAACGCCGTAATAGGTCTTGAGATTTAACGGCGTTTTTCCC
66 AGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCC
* * * * * * ** *
544605 ACAAACACCGCAAAAGATCTAG-TATATAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGT
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGCAATAGGT
544665 CATATCTATA
Statistics
Matches: 169, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
128 33 0.20
129 136 0.80
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (129 bp):
ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTG
AGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCC
Found at i:544644 original size:43 final size:42
Alignment explanation
Indices: 544347--544684 Score: 326
Period size: 43 Copynumber: 7.9 Consensus size: 42
544337 GTTTTGTTGG
* * *
544347 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCA
1 ACAAACGCCGCAATAGGTCTAG-TATTTAGCGGCGTTTTTCCC
* * * *
544390 ACAAACGCTGTAATAGGTGTTGAG-ATTTAGCGACGTTTTTCCC
1 ACAAACGCCGCAATAGGT-CT-AGTATTTAGCGGCGTTTTTCCC
* *
544433 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTCTAG-TATTTAGCGGCGTTTTTCCC
* *
544476 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTCTAG-TATTTAGCGGCGTTTTTCCC
* **
544519 ACAAACGCCGCAATAGGTGTTGAG-ATTTAGCGGCGTTTTTTTC
1 ACAAACGCCGCAATAGGT-CT-AGTATTTAGCGGCGTTTTTCCC
* *
544562 ACAAACGCCGTAATAGGTCTTGAG-ATTTAACGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTC-T-AGTATTTAGCGGCGTTTTTCCC
* * * * ***
544605 ACAAACACCGCAAAAGATCTAGTATATAGCGGCGTTTTTTGA
1 ACAAACGCCGCAATAGGTCTAGTATTTAGCGGCGTTTTTCCC
*
544647 ACAAACGCCGCAAAAGGTC-A-TATCTATAGCGGCGTTTT
1 ACAAACGCCGCAATAGGTCTAGTAT-T-TAGCGGCGTTTT
544685 AAGATACAAA
Statistics
Matches: 253, Mismatches: 32, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.01
41 4 0.02
42 45 0.18
43 197 0.78
44 2 0.01
45 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
ACAAACGCCGCAATAGGTCTAGTATTTAGCGGCGTTTTTCCC
Found at i:544838 original size:21 final size:21
Alignment explanation
Indices: 544812--544870 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
544802 ATTTTCCAAT
* *
544812 AAACTTTACATCCATAACAAC
1 AAACTTAAAATCCATAACAAC
*
544833 AAACTTAAAATCCATAACAAG
1 AAACTTAAAATCCATAACAAC
** *
544854 AAAAATGAAATCCATAA
1 AAACTTAAAATCCATAA
544871 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.20
Consensus pattern (21 bp):
AAACTTAAAATCCATAACAAC
Found at i:546279 original size:16 final size:16
Alignment explanation
Indices: 546217--546283 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
546207 AACCAACAGA
546217 TCCAAACATCACAATT
1 TCCAAACATCACAATT
*
546233 TCC--ATATCACAATT
1 TCCAAACATCACAATT
*
546247 TACC--TCATC-CAACATT
1 T-CCAAACATCAC-A-ATT
546263 TCCAAACATCACAATT
1 TCCAAACATCACAATT
546279 TCCAA
1 TCCAA
546284 CAGTTCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 12 0.29
15 8 0.20
16 15 0.37
17 5 0.12
18 1 0.02
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TCCAAACATCACAATT
Found at i:549187 original size:41 final size:41
Alignment explanation
Indices: 549130--549471 Score: 342
Period size: 41 Copynumber: 8.3 Consensus size: 41
549120 TGTTTGTTCA
549130 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * * **
549171 AAAAATGCCACGAAAGTACTAGT-CTATAAAGGCGTTTGT-T
1 AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTGTAT
549211 CAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 -AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * *
549253 AAAAACGCAACAAAAGTACTAGT-CTATAGCGGCGTTTGT-T
1 AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTGTAT
* * *
549293 CAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTTTT
1 --AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTG-TAT
* ** * * * *
549337 GAAAACGCCACTAAAG-ATTGTATTTTGGCAGCGTTTGTAG
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
549377 AAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * *
549417 AAAAGCGCCACAAAAGTATTAGTA-TTTAGCGGCGTTTGT-T
1 AAAAACGCCACTAAAGTA-CAGTACTTTAGCGGCGTTTGTAT
549457 CAAAAAACGCCACTA
1 --AAAAACGCCACTA
549472 GAAATGCCGC
Statistics
Matches: 248, Mismatches: 37, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
40 54 0.22
41 125 0.50
42 67 0.27
43 1 0.00
44 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
Found at i:549244 original size:82 final size:83
Alignment explanation
Indices: 549121--549471 Score: 446
Period size: 82 Copynumber: 4.3 Consensus size: 83
549111 CTACAGCAGT
* *
549121 GTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAATGCCACGAAA
1 GTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAACGCCACAAAA
* **
549186 GTACTAGTCTATAAAGGC
66 GTACTAGTATATAGCGGC
*
549204 GTTTGTTC-AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAACGCAACAAAA
1 GTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAACGCCACAAAA
*
549268 GTACTAGTCTATAGCGGC
66 GTACTAGTATATAGCGGC
* * * * *
549286 GTTTGTTCAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTTTTGAAAACGCCACTA
1 GTTTGTTCAAAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTG-TATAAAAACGCCACAA
* * * *
549350 AAG-A-TTGTATTTTGGCAGC
64 AAGTACTAGTA-TATAGCGGC
*
549369 GTTTG-T-AGAAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGTATAAAAGCGCCACAAA
1 GTTTGTTCA-AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAACGCCACAAA
* *
549431 AGTATTAGTATTTAGCGGC
65 AGTACTAGTATATAGCGGC
549450 GTTTGTTCAAAAAACGCCACTA
1 GTTTGTTCAAAAAACGCCACTA
549472 GAAATGCCGC
Statistics
Matches: 233, Mismatches: 25, Indels: 21
0.84 0.09 0.08
Matches are distributed among these distances:
80 15 0.06
81 29 0.12
82 118 0.51
83 53 0.23
84 18 0.08
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
GTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTATAAAAACGCCACAAAA
GTACTAGTATATAGCGGC
Found at i:549383 original size:165 final size:164
Alignment explanation
Indices: 549106--549471 Score: 470
Period size: 165 Copynumber: 2.2 Consensus size: 164
549096 TCTGTAATTC
* * * * *
549106 CTAGTCTACAGCAGTGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAATACTATAGCGGCGTTTGTAT
* *
549171 AAAAATGCCACGAAAGTACTAGTCTATAAAGGCGTTTGTTCAAAAACGCCACTAAAGTACAGTAC
66 AAAAACGCCACGAAAGTACTAGTCTATAAAGGCGTTTGTACAAAAACGCCACTAAAGTACAGT-C
549236 TTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
130 TTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
549271 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTAC-AATACTATAGCGGCGTTTG-T
* * * * * *** *
549335 TTGAAAACGCCACTAAAG-A-TTGTAT-TTTGGCAGCGTTTGTAGAAAAACGCCACTAAAGTACA
64 ATAAAAACGCCACGAAAGTACTAGTCTATAAAG--GCGTTTGTACAAAAACGCCACTAAAGTACA
* *
549397 GTCTTTAGCGGCGTTTGTATAAAAGCGCCACAAAAGTA
127 GTCTTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
* * *
549435 TTAGTATTTAGCGGCGTTTGTTCAAAAAACGCCACTA
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTA
549472 GAAATGCCGC
Statistics
Matches: 176, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
163 2 0.01
164 72 0.41
165 84 0.48
166 18 0.10
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (164 bp):
CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAATACTATAGCGGCGTTTGTAT
AAAAACGCCACGAAAGTACTAGTCTATAAAGGCGTTTGTACAAAAACGCCACTAAAGTACAGTCT
TTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
Found at i:551040 original size:22 final size:19
Alignment explanation
Indices: 550995--551031 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
550985 ATAAGGAGAG
550995 AAGGAAACTTGAAGAAGAT
1 AAGGAAACTTGAAGAAGAT
551014 AAGGAAACTTGAAGAAGA
1 AAGGAAACTTGAAGAAGA
551032 GAATAAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.27, T:0.14
Consensus pattern (19 bp):
AAGGAAACTTGAAGAAGAT
Found at i:556475 original size:20 final size:20
Alignment explanation
Indices: 556450--556495 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
556440 ACATTGAGGT
556450 AGTATGCTATGCCTACTTAA
1 AGTATGCTATGCCTACTTAA
* *
556470 AGTATGCTCTTCCTACTTAA
1 AGTATGCTATGCCTACTTAA
556490 AGTATG
1 AGTATG
556496 ATTTTCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
AGTATGCTATGCCTACTTAA
Found at i:558098 original size:21 final size:21
Alignment explanation
Indices: 558074--558125 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
558064 TCGCAGCCAC
558074 AAGCACAACATCCAGTTGCTT
1 AAGCACAACATCCAGTTGCTT
*
558095 AAGCATAACATCCAGTTGCTT
1 AAGCACAACATCCAGTTGCTT
*
558116 AGGCACAACA
1 AAGCACAACA
558126 AAGGCAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (21 bp):
AAGCACAACATCCAGTTGCTT
Found at i:561107 original size:44 final size:43
Alignment explanation
Indices: 561008--561107 Score: 146
Period size: 44 Copynumber: 2.3 Consensus size: 43
560998 GAGATCTTAG
* * *
561008 GAAATAAGTTGGGTAATGTTGGTAATAGCTCCAACATAGTTTA
1 GAAATAAGTTGGGTAATGCTAGTAATAGCTCCAACATAGTTGA
561051 GAGAATAAGTTGGGTAATGCTAGTAATAGCTCCAACATAGTGTGA
1 GA-AATAAGTTGGGTAATGCTAGTAATAGCTCCAACATAGT-TGA
*
561096 GAAATATGTTGG
1 GAAATAAGTTGG
561108 AAATTCAACA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.04
44 45 0.88
45 4 0.08
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (43 bp):
GAAATAAGTTGGGTAATGCTAGTAATAGCTCCAACATAGTTGA
Found at i:564202 original size:145 final size:145
Alignment explanation
Indices: 563934--564470 Score: 699
Period size: 145 Copynumber: 3.7 Consensus size: 145
563924 ATATTAATAA
* * * * * *
563934 TTGTTGAAGATGATTAAATGACCACT-AAAAAGTTGGTGAAATGGTGTATTATTTGGCCTACGT-
1 TTGTTAAACATGATTAAATGACCACTGCAAAAGTTGGTGAAATGGTGCATTATTTGGCATATGTG
* * * *
563997 AAA-ATACATGTTTTTCTGATATGAAGTGATAATGCAGCACTGAAAAGTTTTTTGATTTGAGTTT
66 AAATACACAT-TTTTTCTGATATGAAGTGATAATGCACCACTGAAAAGTTTTCTGATTTGAGTTG
*
564061 ATATATCACTAAAAAG
130 ATATATCACTGAAAAG
* * * *
564077 TTGTTAAACATGAATAAATGACCACTGCAAAAGTTGGTGAAATAGTGTATTATTTGGCCTATGTG
1 TTGTTAAACATGATTAAATGACCACTGCAAAAGTTGGTGAAATGGTGCATTATTTGGCATATGTG
* * *
564142 AAATACACATTTTTTCTGATATGAAGTAACAATGCACCACTGAAAAGTTTTCTAATTTGAGTTGA
66 AAATACACATTTTTTCTGATATGAAGTGATAATGCACCACTGAAAAGTTTTCTGATTTGAGTTGA
564207 TATATCACTGAAAAG
131 TATATCACTGAAAAG
* * *
564222 TTGTTAAAGATGATTAAATAACCACTGCAAAAGTTGGTGAAAT-GTGCATTATTTGGCATATATG
1 TTGTTAAACATGATTAAATGACCACTGCAAAAGTTGGTGAAATGGTGCATTATTTGGCATATGTG
* * ** * * *
564286 AAAAACAC-GTTTTTCACATATGAAGTGATAATGCACCACTGGAAAGTTATCTGACTTGAGTTGA
66 AAATACACATTTTTTCTGATATGAAGTGATAATGCACCACTGAAAAGTTTTCTGATTTGAGTTGA
564350 TATATCACTGAAAAG
131 TATATCACTGAAAAG
* * * * * * *
564365 TTGTTGAACATGATTAAATTACCAATGCAAAAGTTGGTGAAATGGTACATTATTTTAGCATGTGA
1 TTGTTAAACATGATTAAATGACCACTGCAAAAGTTGGTGAAATGGTGCATTA-TTTGGCATATGT
564430 GAAATACACA-TTTTTCTGATATGAAGTGATAATGCACCACT
65 GAAATACACATTTTTTCTGATATGAAGTGATAATGCACCACT
564471 ATTTCACCTG
Statistics
Matches: 346, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
143 124 0.36
144 66 0.19
145 151 0.44
146 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (145 bp):
TTGTTAAACATGATTAAATGACCACTGCAAAAGTTGGTGAAATGGTGCATTATTTGGCATATGTG
AAATACACATTTTTTCTGATATGAAGTGATAATGCACCACTGAAAAGTTTTCTGATTTGAGTTGA
TATATCACTGAAAAG
Found at i:564456 original size:288 final size:288
Alignment explanation
Indices: 563934--564470 Score: 756
Period size: 288 Copynumber: 1.9 Consensus size: 288
563924 ATATTAATAA
* * * * *
563934 TTGTTGAAGATGATTAAATGACCACTAAAAAGTTGGTGAAATGGTGTATTATTTGGCCTACGTAA
1 TTGTTAAAGATGATTAAATAACCACTAAAAAGTTGGTGAAATGGTGCATTATTTGGCATACATAA
* ** * * * * *
563999 AATACATGTTTTTCTGATATGAAGTGATAATGCAGCACTGAAAAGTTTTTTGATTTGAGTTTATA
66 AATACACGTTTTTCACATATGAAGTGATAATGCACCACTGAAAAGTTATCTGACTTGAGTTGATA
* **
564064 TATCACTAAAAAGTTGTTAAACATGAATAAATGACCACTGCAAAAGTTGGTGAAATAGTGTATTA
131 TATCACTAAAAAGTTGTTAAACATGAATAAATGACCAATGCAAAAGTTGGTGAAATAGTACATTA
* * *
564129 TTTGGCCTATGTGAAATACACATTTTTTCTGATATGAAGTAACAATGCACCACTGAAAAGTTTTC
196 TTTAGCATATGAGAAATACACATTTTTTCTGATATGAAGTAACAATGCACCACTGAAAAGTTTTC
564194 TAATTTGAGTTGATATATCACTGAAAAG
261 TAATTTGAGTTGATATATCACTGAAAAG
* *
564222 TTGTTAAAGATGATTAAATAACCACTGCAAAAGTTGGTGAAAT-GTGCATTATTTGGCATATATG
1 TTGTTAAAGATGATTAAATAACCACT-AAAAAGTTGGTGAAATGGTGCATTATTTGGCATACAT-
*
564286 AAAA-ACACGTTTTTCACATATGAAGTGATAATGCACCACTGGAAAGTTATCTGACTTGAGTTGA
64 AAAATACACGTTTTTCACATATGAAGTGATAATGCACCACTGAAAAGTTATCTGACTTGAGTTGA
* * * * *
564350 TATATCACTGAAAAGTTGTTGAACATGATTAAATTACCAATGCAAAAGTTGGTGAAATGGTACAT
129 TATATCACTAAAAAGTTGTTAAACATGAATAAATGACCAATGCAAAAGTTGGTGAAATAGTACAT
* * *
564415 TATTTTAGCATGTGAGAAATACACA-TTTTTCTGATATGAAGTGATAATGCACCACT
194 TA-TTTAGCATATGAGAAATACACATTTTTTCTGATATGAAGTAACAATGCACCACT
564471 ATTTCACCTG
Statistics
Matches: 216, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
288 179 0.83
289 37 0.17
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (288 bp):
TTGTTAAAGATGATTAAATAACCACTAAAAAGTTGGTGAAATGGTGCATTATTTGGCATACATAA
AATACACGTTTTTCACATATGAAGTGATAATGCACCACTGAAAAGTTATCTGACTTGAGTTGATA
TATCACTAAAAAGTTGTTAAACATGAATAAATGACCAATGCAAAAGTTGGTGAAATAGTACATTA
TTTAGCATATGAGAAATACACATTTTTTCTGATATGAAGTAACAATGCACCACTGAAAAGTTTTC
TAATTTGAGTTGATATATCACTGAAAAG
Found at i:564541 original size:35 final size:35
Alignment explanation
Indices: 564488--564567 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
564478 CTGTTTTTTG
*
564488 AAAAGTTACTTAAATGCTGCATTAAATGACCTCTA
1 AAAAGTTACTTAAATGCTGCATTAAACGACCTCTA
** * * *
564523 AAAAGTTGTTTAACTGCTGCATTAAACGACCTTTG
1 AAAAGTTACTTAAATGCTGCATTAAACGACCTCTA
564558 AAAAGTTACT
1 AAAAGTTACT
564568 GATACGGTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (35 bp):
AAAAGTTACTTAAATGCTGCATTAAACGACCTCTA
Found at i:568745 original size:14 final size:14
Alignment explanation
Indices: 568722--568751 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
568712 AGCTTGATTT
*
568722 TGAAATAACTAAAA
1 TGAAACAACTAAAA
568736 TGAAACAACTAAAA
1 TGAAACAACTAAAA
568750 TG
1 TG
568752 GGCGCTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (14 bp):
TGAAACAACTAAAA
Found at i:577690 original size:28 final size:28
Alignment explanation
Indices: 577610--577682 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
577600 AGAGTCGAGG
577610 GTTCTACGTGGTCTTTCGGGACATATGT
1 GTTCTACGTGGTCTTTCGGGACATATGT
* *
577638 GTTCAACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCTTTCGGGACATATGT
*
577666 GTTCTATGTGGTCTTTC
1 GTTCTACGTGGTCTTTC
577683 AAGACATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.14, C:0.19, G:0.27, T:0.40
Consensus pattern (28 bp):
GTTCTACGTGGTCTTTCGGGACATATGT
Found at i:582742 original size:18 final size:20
Alignment explanation
Indices: 582703--582746 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
582693 AAAAAATACA
582703 AATAAAAATATATAATTATAT
1 AATAAAAATATAT-ATTATAT
582724 AATAAAAATATAT-TT-TAT
1 AATAAAAATATATATTATAT
582742 AATAA
1 AATAA
582747 CTCACTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
21 13 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAAAAATATATATTATAT
Found at i:584203 original size:70 final size:70
Alignment explanation
Indices: 584121--584259 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
584111 ACTCTAATAT
* *
584121 ATTTTCAATCAATTTGCTTCTACAAATATCTCAAATTCAGCTGCCTGCATACTCCAGTTAAATGC
1 ATTTTCAATCAATTTGCTTATACAAATATCTCAAATTCAGCTGCCTGCATACACCAGTTAAATGC
584186 TTCTA
66 TTCTA
584191 ATTTTCAATCAATTTGCTTATACAAATATCTCAAATTCAGCTGCCTGCATACACCAGTTAAATGC
1 ATTTTCAATCAATTTGCTTATACAAATATCTCAAATTCAGCTGCCTGCATACACCAGTTAAATGC
584256 TTCT
66 TTCT
584260 GGATCTCATC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (70 bp):
ATTTTCAATCAATTTGCTTATACAAATATCTCAAATTCAGCTGCCTGCATACACCAGTTAAATGC
TTCTA
Found at i:594016 original size:16 final size:16
Alignment explanation
Indices: 593995--594028 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
593985 GATTGAAAAC
593995 CTCTCCCACTCTCTCT
1 CTCTCCCACTCTCTCT
594011 CTCTCCCACTCTCTCT
1 CTCTCCCACTCTCTCT
594027 CT
1 CT
594029 AGCACTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.56, G:0.00, T:0.38
Consensus pattern (16 bp):
CTCTCCCACTCTCTCT
Found at i:594022 original size:14 final size:15
Alignment explanation
Indices: 593995--594028 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
593985 GATTGAAAAC
593995 CTCTCCCACTCTCTCT
1 CTCTCCCAC-CTCTCT
594011 CTCTCCCA-CTCTCT
1 CTCTCCCACCTCTCT
594025 CTCT
1 CTCT
594029 AGCACTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
16 8 0.44
ACGTcount: A:0.06, C:0.56, G:0.00, T:0.38
Consensus pattern (15 bp):
CTCTCCCACCTCTCT
Found at i:609254 original size:11 final size:11
Alignment explanation
Indices: 609238--609262 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
609228 GGGAAGGTTA
609238 TGATATTTATT
1 TGATATTTATT
609249 TGATATTTATT
1 TGATATTTATT
609260 TGA
1 TGA
609263 CTCTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (11 bp):
TGATATTTATT
Found at i:610020 original size:67 final size:67
Alignment explanation
Indices: 609912--610039 Score: 247
Period size: 67 Copynumber: 1.9 Consensus size: 67
609902 ACAGTTATCT
609912 AAGATGAACTAAGTATCATTGTTGAAAGTCACCAACAAAGCTAGAATTATTTTGTATAAATACTA
1 AAGATGAACTAAGTATCATTGTTGAAAGTCACCAACAAAGCTAGAATTATTTTGTATAAATACTA
609977 CG
66 CG
*
609979 AAGATGAACTAAGTATCATTGTTGAAAGTCACCAACAAAGCTGGAATTATTTTGTATAAAT
1 AAGATGAACTAAGTATCATTGTTGAAAGTCACCAACAAAGCTAGAATTATTTTGTATAAAT
610040 GACATATAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (67 bp):
AAGATGAACTAAGTATCATTGTTGAAAGTCACCAACAAAGCTAGAATTATTTTGTATAAATACTA
CG
Found at i:611370 original size:53 final size:54
Alignment explanation
Indices: 611307--611429 Score: 146
Period size: 53 Copynumber: 2.3 Consensus size: 54
611297 CCTGAATGAT
* *
611307 GGTATCGATACCCTTGAAACATTAAATGCCA-GATAGTATC-AGTACCTTGAGGA
1 GGTATCGATACCCTTGAAACATCAAATGCCATGATAGTATCGA-TACCATGAGGA
* * ** *
611360 GGTATCGATACCCTTG-AACATCGAATGCTATTTTGGTATCGATACCATGAGGA
1 GGTATCGATACCCTTGAAACATCAAATGCCATGATAGTATCGATACCATGAGGA
611413 GGTA-CGATACCCTTGAA
1 GGTATCGATACCCTTGAA
611430 GGTAAGTATC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
52 22 0.37
53 37 0.62
54 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (54 bp):
GGTATCGATACCCTTGAAACATCAAATGCCATGATAGTATCGATACCATGAGGA
Found at i:614808 original size:29 final size:29
Alignment explanation
Indices: 614762--614831 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
614752 CCTAATGGGC
614762 AAAGTTTT-AAAAATTTATGTTT-AAAAA
1 AAAGTTTTGAAAAATTTATGTTTGAAAAA
*
614789 ACATGTTTTTGAAAAA-TTATGTTTGAAAAA
1 A-AAG-TTTTGAAAAATTTATGTTTGAAAAA
614819 AAAGTTTTGAAAA
1 AAAGTTTTGAAAA
614832 TTAATATGCG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 1 0.03
28 11 0.30
29 14 0.38
30 11 0.30
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (29 bp):
AAAGTTTTGAAAAATTTATGTTTGAAAAA
Found at i:615362 original size:23 final size:23
Alignment explanation
Indices: 615321--615381 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
615311 TCCCTCCAGA
615321 GGGAATCGGTT-CCCTTCAAAA-G
1 GGGAATC-GTTCCCCTTCAAAAGG
615343 GGGAATCAGTTCCCCTTCAAAAGG
1 GGGAATC-GTTCCCCTTCAAAAGG
615367 GGGAA-CGTTCCCCTT
1 GGGAATCGTTCCCCTT
615382 TAAGGGGGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 19 0.53
23 11 0.31
24 6 0.17
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (23 bp):
GGGAATCGTTCCCCTTCAAAAGG
Found at i:619135 original size:21 final size:20
Alignment explanation
Indices: 619095--619132 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
619085 AAGACTATTT
619095 TCATTTTTAATTTTGAAATA
1 TCATTTTTAATTTTGAAATA
*
619115 TCATTTTTTATTTTGAAA
1 TCATTTTTAATTTTGAAA
619133 ATAAAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TCATTTTTAATTTTGAAATA
Found at i:621172 original size:21 final size:21
Alignment explanation
Indices: 621110--621167 Score: 107
Period size: 21 Copynumber: 2.7 Consensus size: 21
621100 GCCAAACCAC
621110 TTAGGGGGAATCGGTACCCCT
1 TTAGGGGGAATCGGTACCCCT
621131 TTAGGGGGAATCGGTACCCCT
1 TTAGGGGGAATCGGTACCCCT
621152 TTAGGGGGGAATCGGT
1 TTA-GGGGGAATCGGT
621168 TCCCTCTGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.24
Consensus pattern (21 bp):
TTAGGGGGAATCGGTACCCCT
Found at i:627418 original size:53 final size:53
Alignment explanation
Indices: 627295--627436 Score: 171
Period size: 53 Copynumber: 2.7 Consensus size: 53
627285 TAAGGGGTAT
*
627295 TATCGATACC-TGAAGGATGATATCGATACCCTTGAAACATAGAATACCAGATTGG
1 TATCGATACCATG-AGGA-GGTATCGATACCCTTG-AACATAGAATACCAGATTGG
* * * * **
627350 TATCGATACCTTGAGGAGGTATCGATACCCTTGAACATCGAATGCTATTTTGG
1 TATCGATACCATGAGGAGGTATCGATACCCTTGAACATAGAATACCAGATTGG
*
627403 TATCGGTACCATGAGGAGGTA-CGATACCCTTGAA
1 TATCGATACCATGAGGAGGTATCGATACCCTTGAA
627437 GGGAAGTATC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 13 0.17
53 34 0.44
54 15 0.19
55 14 0.18
56 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (53 bp):
TATCGATACCATGAGGAGGTATCGATACCCTTGAACATAGAATACCAGATTGG
Found at i:628301 original size:64 final size:63
Alignment explanation
Indices: 628233--628411 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
628223 TGGAACACTT
* * * **
628233 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* *
628297 AGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
** *
628361 AGTGCATCAATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
628412 CAATTTATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
64 95 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:629501 original size:21 final size:21
Alignment explanation
Indices: 629477--629520 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
629467 TGGAGGATTG
* *
629477 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
629498 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
629519 AG
1 AG
629521 CTCTCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:631071 original size:44 final size:44
Alignment explanation
Indices: 630977--631073 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
630967 GATCTTGTGC
* *
630977 ATCGATGCACATTCAAGGGCGTGCATCGGTGCATCAGCTGATGT
1 ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAATGT
* * * *
631021 AGCGATGCACATTCAAATGG-ATGCATCGGTGCA-CTGTTAAGTGT
1 ATCGATGCACATTC-AAGGGCATGCATCGGTGCATCAGCTAA-TGT
631065 ATCGATGCA
1 ATCGATGCA
631074 TTAAGCACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 4 0.09
44 36 0.82
45 4 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGGCATGCATCGGTGCATCAGCTAATGT
Found at i:636925 original size:64 final size:63
Alignment explanation
Indices: 636857--637035 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 63
636847 TGGAACACTT
* * * **
636857 AGTGCATCGGTGCACCAAGTGTGCATCGATGCAAAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCAAGAAATGCATTCGATGTTTGAATAA-AACCCA
* * * * *
636921 AGTGCATTGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCAATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCAAGAAATGCATTCGATGTTTGAATAAAACCCA
* *
636985 AGTGCATCGATGCATAGAGAGTGCATCGATGCAAGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCAAGAAATGCATTCGATGTT
637036 CAATTTATTC
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
64 90 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCAAGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:637033 original size:18 final size:19
Alignment explanation
Indices: 636987--637033 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
636977 AAAACCCAAG
*
636987 TGCATCGATGCATAGAGAG
1 TGCATCGATGCATAGAGAA
637006 TGCATCGATGCA-AGA-AA
1 TGCATCGATGCATAGAGAA
637023 TGCATTCGATG
1 TGCA-TCGATG
637034 TTCAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (19 bp):
TGCATCGATGCATAGAGAA
Found at i:639775 original size:22 final size:22
Alignment explanation
Indices: 639726--639776 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
639716 ATTACATATA
*
639726 ATTTT-AAAAAATAAAATTTAT
1 ATTTTAAAAAAATAAAATTGAT
*
639747 ATATTAAAATAAATAAAA-TGAT
1 ATTTTAAAA-AAATAAAATTGAT
639769 ATTTTAAA
1 ATTTTAAA
639777 TACTAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 4 0.16
22 13 0.52
23 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTTAAAAAAATAAAATTGAT
Found at i:641869 original size:14 final size:13
Alignment explanation
Indices: 641849--641886 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
641839 GGTCATACAT
641849 ATTTTTTATTTTA
1 ATTTTTTATTTTA
*
641862 AGTTTTTTATTTTT
1 A-TTTTTTATTTTA
641876 A-TTTTTATTTT
1 ATTTTTTATTTT
641887 CATCAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 10 0.43
13 1 0.04
14 12 0.52
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
ATTTTTTATTTTA
Found at i:644697 original size:35 final size:35
Alignment explanation
Indices: 644651--644725 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
644641 TTCATGTTCA
*
644651 AAATTCCAAAATACTTCAATTGCATTCTAAACCCT
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCT
* * * *
644686 AAATTTCAAAATATTTTAATTACATTCTAAACCTT
1 AAATTCCAAAATACTTCAATTACATTCTAAACCCT
644721 AAATT
1 AAATT
644726 AAAGTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.37
Consensus pattern (35 bp):
AAATTCCAAAATACTTCAATTACATTCTAAACCCT
Found at i:644776 original size:35 final size:35
Alignment explanation
Indices: 644721--644797 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
644711 TCTAAACCTT
* *
644721 AAATTAAAGTATTTTAGAATTTAGGGTTTAAAATG
1 AAATTGAATTATTTTAGAATTTAGGGTTTAAAATG
* * * *
644756 TAATTGAATTATTTTGGAATTTGGGGTTTATAATG
1 AAATTGAATTATTTTAGAATTTAGGGTTTAAAATG
644791 AAATTGA
1 AAATTGA
644798 TGACTGTGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTAGGGTTTAAAATG
Found at i:644916 original size:41 final size:41
Alignment explanation
Indices: 644859--644962 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
644849 AAAATTTAGT
644859 GACCATATTGCAAACGTACTAACGACAGTGTAACGTCAGAG
1 GACCATATTGCAAACGTACTAACGACAGTGTAACGTCAGAG
* *
644900 GACCATATTGCAAACGTACTAACGACAGTGTAACGTCGGGG
1 GACCATATTGCAAACGTACTAACGACAGTGTAACGTCAGAG
* *
644941 GATCATATTGCAAACGGACTAA
1 GACCATATTGCAAACGTACTAA
644963 ATGTTAAAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (41 bp):
GACCATATTGCAAACGTACTAACGACAGTGTAACGTCAGAG
Found at i:647440 original size:31 final size:31
Alignment explanation
Indices: 647402--647526 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
647392 CCCGAAGGAC
* * *
647402 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
647433 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
647464 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
647495 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
647526 C
1 C
647527 CCTCGACCGT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:648150 original size:35 final size:36
Alignment explanation
Indices: 648091--648161 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
648081 TTCATTTAGG
648091 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
648127 GGGGAATCGATA-CCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
648162 CCTGCACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
Found at i:648162 original size:20 final size:20
Alignment explanation
Indices: 648104--648163 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
648094 GAATCGATAC
648104 CCCCCCAGGGGGAATCTGTT
1 CCCCCCAGGGGGAATCTGTT
*
648124 ---CCC--GGGGAATC-GATA
1 CCCCCCAGGGGGAATCTG-TT
648139 CCCCCCAGGGGGAATCTGTT
1 CCCCCCAGGGGGAATCTGTT
648159 CCCCC
1 CCCCC
648164 TGCACATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 1 0.03
15 9 0.29
17 3 0.10
18 3 0.10
20 14 0.45
21 1 0.03
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (20 bp):
CCCCCCAGGGGGAATCTGTT
Found at i:648987 original size:13 final size:13
Alignment explanation
Indices: 648971--649043 Score: 50
Period size: 13 Copynumber: 6.0 Consensus size: 13
648961 TTTAAATTAA
648971 ATATATAAATATT
1 ATATATAAATATT
*
648984 ATATATATATATT
1 ATATATAAATATT
* *
648997 ATTAAATTAA-ATT
1 A-TATATAAATATT
649010 -TAT-T-AATATT
1 ATATATAAATATT
*
649020 ATATATATATA-T
1 ATATATAAATATT
*
649032 ATA-ATAATTATT
1 ATATATAAATATT
649044 TTTAATATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.04
10 4 0.09
11 10 0.22
12 6 0.13
13 19 0.41
14 5 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATATAAATATT
Found at i:649002 original size:36 final size:35
Alignment explanation
Indices: 648951--649031 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 35
648941 CAGGGCCGAG
648951 TATATATATA-TTTAAATTAAATATATAAATATTA
1 TATATATATATTTTAAATTAAATATATAAATATTA
* *
648985 TATATATATATTATTAAATTAAATTTATTAATATTA
1 TATATATATATT-TTAAATTAAATATATAAATATTA
649021 TATATATATAT
1 TATATATATAT
649032 ATAATAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 10 0.23
35 1 0.02
36 32 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
TATATATATATTTTAAATTAAATATATAAATATTA
Found at i:649041 original size:36 final size:35
Alignment explanation
Indices: 648951--649052 Score: 122
Period size: 36 Copynumber: 3.0 Consensus size: 35
648941 CAGGGCCGAG
* * *
648951 TATATATATATTTA-AATTAAATATATAAATATTA
1 TATATATATATTAATAATTAAATTTATTAATATTA
*
648985 TATATATATATTATTAAATTAAATTTATTAATATTA
1 TATATATATATTAAT-AATTAAATTTATTAATATTA
649021 TATATATATATATAATAATT--ATTT-TTAATATT
1 TATATATATAT-TAATAATTAAATTTATTAATATT
649053 TATCGGGACG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
33 8 0.13
34 16 0.27
36 33 0.55
37 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (35 bp):
TATATATATATTAATAATTAAATTTATTAATATTA
Found at i:650775 original size:15 final size:15
Alignment explanation
Indices: 650755--650806 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
650745 ATATTTAGCT
*
650755 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
*
650770 GGGCGGGTGGATGCG
1 GGGCGGGCGGATGCG
*
650785 GGGCGGGCTGATGCG
1 GGGCGGGCGGATGCG
650800 GGGCGGG
1 GGGCGGG
650807 TAATATCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.06, C:0.15, G:0.67, T:0.12
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:652115 original size:2 final size:2
Alignment explanation
Indices: 652108--652140 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
652098 CGTTTCTCTT
652108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
652141 CTTGGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:657198 original size:16 final size:16
Alignment explanation
Indices: 657177--657209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
657167 TAATAAATAA
657177 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
657193 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
657209 A
1 A
657210 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:657290 original size:10 final size:10
Alignment explanation
Indices: 657275--657349 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
657265 CATTTAATAA
657275 ATAAACGAAC
1 ATAAACGAAC
657285 ATAAACGAAC
1 ATAAACGAAC
657295 ----ACGAAC
1 ATAAACGAAC
657301 ATAAACGAAC
1 ATAAACGAAC
** *
657311 ACGAAC-ATAA
1 ATAAACGA-AC
657321 ATGAACACGAAC
1 AT-AA-ACGAAC
657333 ATAAACGAAC
1 ATAAACGAAC
657343 ATAAACG
1 ATAAACG
657350 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:657300 original size:16 final size:16
Alignment explanation
Indices: 657279--657343 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
657269 TAATAAATAA
657279 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
657295 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
657311 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
657327 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
657343 A
1 A
657344 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:657782 original size:10 final size:10
Alignment explanation
Indices: 657767--657814 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
657757 ATAAATGAAT
657767 GAACATAAAC
1 GAACATAAAC
657777 GAACATTACCGAAC
1 GAACA-TA---AAC
657791 GAACATAAAC
1 GAACATAAAC
*
657801 GAACATAACC
1 GAACATAAAC
657811 GAAC
1 GAAC
657815 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 21 0.64
11 2 0.06
13 2 0.06
14 8 0.24
ACGTcount: A:0.52, C:0.25, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:657794 original size:24 final size:24
Alignment explanation
Indices: 657767--657822 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
657757 ATAAATGAAT
*
657767 GAACATAAACGAACATTACCGAAC
1 GAACATAAACGAACATAACCGAAC
657791 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
657815 GAACATAA
1 GAACATAA
657823 CCAAACGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:657821 original size:14 final size:14
Alignment explanation
Indices: 657774--657829 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
657764 AATGAACATA
*
657774 AACGAACATTACCG
1 AACGAACATAACCG
657788 AACGAACAT-A---
1 AACGAACATAACCG
657798 AACGAACATAACCG
1 AACGAACATAACCG
*
657812 AACGAACATAACCA
1 AACGAACATAACCG
657826 AACG
1 AACG
657830 TTCATGAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.52, C:0.27, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:658356 original size:89 final size:89
Alignment explanation
Indices: 658205--658375 Score: 333
Period size: 89 Copynumber: 1.9 Consensus size: 89
658195 ACCAGAAACT
*
658205 ATCTCCTAAGAAAAGCTACAACAAAACACCACCTTAACCAATTCCTAGCTTTGCTAGGTCATCCG
1 ATCTCCTAAGAAAACCTACAACAAAACACCACCTTAACCAATTCCTAGCTTTGCTAGGTCATCCG
658270 CCTTACAATTCGCACATCTCTGAA
66 CCTTACAATTCGCACATCTCTGAA
658294 ATCTCCTAAGAAAACCTACAACAAAACACCACCTTAACCAATTCCTAGCTTTGCTAGGTCATCCG
1 ATCTCCTAAGAAAACCTACAACAAAACACCACCTTAACCAATTCCTAGCTTTGCTAGGTCATCCG
658359 CCTTACAATTCGCACAT
66 CCTTACAATTCGCACAT
658376 TATTATCAGG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.25
Consensus pattern (89 bp):
ATCTCCTAAGAAAACCTACAACAAAACACCACCTTAACCAATTCCTAGCTTTGCTAGGTCATCCG
CCTTACAATTCGCACATCTCTGAA
Found at i:658918 original size:28 final size:28
Alignment explanation
Indices: 658878--658934 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
658868 CCCAAAAGTT
658878 TGAGGGCTTTTGACACCCTTGACCTTAA
1 TGAGGGCTTTTGACACCCTTGACCTTAA
658906 TGAGGGCTTTTGACACCCTTGACCTTAA
1 TGAGGGCTTTTGACACCCTTGACCTTAA
658934 T
1 T
658935 TTTTTAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGAGGGCTTTTGACACCCTTGACCTTAA
Found at i:659377 original size:23 final size:23
Alignment explanation
Indices: 659338--659390 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
659328 ACGTTAATTA
659338 TTAGG-AAAAGAAAATTATCT-TT
1 TTAGGAAAAAGAAAATTAT-TATT
*
659360 TTAGGAAAAAGAATATTATTATT
1 TTAGGAAAAAGAAAATTATTATT
659383 TTAGGAAA
1 TTAGGAAA
659391 TATCAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (23 bp):
TTAGGAAAAAGAAAATTATTATT
Found at i:659540 original size:45 final size:47
Alignment explanation
Indices: 659449--659541 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 47
659439 ATTATATTGC
* * * *
659449 AATTTTAATTTCTTGCTTTCTTAGAAGCTTTTTCTTAGTAGTAGACTT
1 AATTTAAATTTCTTGC-TTCTTAGAAGCTTTTCCTTAATAGGAGACTT
659497 AATTTAAATTTCTTGC-T-TTAGAAG-TCTTTCCTTAATAGGAGACTT
1 AATTTAAATTTCTTGCTTCTTAGAAGCT-TTTCCTTAATAGGAGACTT
659542 TCCTTAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.03
45 23 0.57
46 1 0.03
48 15 0.38
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (47 bp):
AATTTAAATTTCTTGCTTCTTAGAAGCTTTTCCTTAATAGGAGACTT
Found at i:661950 original size:22 final size:22
Alignment explanation
Indices: 661919--661970 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
661909 CCTTCATGTT
*
661919 CCACTGTTTGATACCTATTCTG
1 CCACTGTTTGATACCTATTATG
* * *
661941 CCGCTGTTTGGTACCTGTTATG
1 CCACTGTTTGATACCTATTATG
661963 CCACTGTT
1 CCACTGTT
661971 GGTAACTGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.40
Consensus pattern (22 bp):
CCACTGTTTGATACCTATTATG
Found at i:664979 original size:19 final size:20
Alignment explanation
Indices: 664955--665003 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
664945 TCGAATAATT
*
664955 AAATTGAATATAATAT-TTA
1 AAATTGAATATAAAATCTTA
664974 AAATTGAATATAAAATCTTA
1 AAATTGAATATAAAATCTTA
*
664994 AAATTCAATA
1 AAATTGAATA
665004 GTCCTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
AAATTGAATATAAAATCTTA
Found at i:677090 original size:30 final size:30
Alignment explanation
Indices: 677050--677106 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
677040 ATAATACAGT
* **
677050 CCCCTAACATTTAGTCTGTTTGCAATACAA
1 CCCCCAACATTTAGTCCATTTGCAATACAA
677080 CCCCCAACATTTAGTCCATTTGCAATA
1 CCCCCAACATTTAGTCCATTTGCAATA
677107 TGGTCCCCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (30 bp):
CCCCCAACATTTAGTCCATTTGCAATACAA
Found at i:677406 original size:14 final size:14
Alignment explanation
Indices: 677384--677426 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
677374 TCGATTATAT
*
677384 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
*
677398 GTTCATTTATGTTT
1 GTTCATTTATGTTC
677412 GTTCATTTATGTTC
1 GTTCATTTATGTTC
677426 G
1 G
677427 ATTAGAGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:680076 original size:2 final size:2
Alignment explanation
Indices: 680071--680105 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
680061 AATGGAAATG
680071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
680106 GGGATTATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:680584 original size:181 final size:179
Alignment explanation
Indices: 680313--680944 Score: 835
Period size: 181 Copynumber: 3.5 Consensus size: 179
680303 CGCTCCATAG
* * * * * *
680313 CAATATTACAGGTACAAATATGACAAAACCGATCCCAAAATGAC--AACCGGTAAAATGCTACTG
1 CAATATAACAGGTA-AAATATGATAAAACCGGTCTCAAAATGACAAAACCGGAAAAAT--TACCG
* *
680376 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCAAAACTTTCTGAATTTAAAAGAGAAGAA
63 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
* * * * ** * *
680441 GCTATAGTGCCTATAAAGTGTCGATACTTTAAAAAAATATATTGATCCACAA
128 GTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATTGATCCAAAA
* *
680493 CAATATAACAGGTAAAATATGATAAAACCGGTCTCATAAGTGACAAAACCGGAAAACATTATCGG
1 CAATATAACAGGTAAAATATGATAAAACCGGTCTCA-AAATGACAAAACCGGAAAA-ATTACCGG
* *
680558 ATATATTGAAAGTGTCAATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAG
64 ATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAG
** *
680623 TTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATTGATCCTTAC
129 TTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATTGATCCAAAA
* *
680674 CAATATAACAGGTAAAATATGATAAAACAGGTCTCAAAATGACAAAACC-GAAAAAGTTACCAGA
1 CAATATAACAGGTAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGAAAAA-TTACCGGA
* * *
680738 TATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTTAATTT-AAA-AGAAGAAGT
65 TATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGT
* *
680801 TATAGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAA
130 TATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATTGATCCAAAA
680851 CAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGTAAATAGA-TACC
1 CAATATAACAGGT-AAAATATGATAAAACCGGTCTCAAAATGACAAAACCGG-AAA-A-ATTACC
* * *
680915 GTATATGTTGAAAGTGTCGATACTTTAATA
62 GGATATATTGAAAGTGTCGATAATTTAATA
680945 AGTACGCGTA
Statistics
Matches: 401, Mismatches: 41, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
177 67 0.17
178 39 0.10
179 77 0.19
180 64 0.16
181 142 0.35
182 10 0.02
183 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (179 bp):
CAATATAACAGGTAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGAAAAATTACCGGAT
ATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTT
ATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATTGATCCAAAA
Found at i:681349 original size:18 final size:19
Alignment explanation
Indices: 681326--681370 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
681316 TAGTTAATAT
681326 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
681344 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
681363 TTTTAGGT
1 TTATAGGT
681371 TATATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:681550 original size:21 final size:21
Alignment explanation
Indices: 681524--681573 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
681514 ACTGATATAT
681524 GAAGGAAAAATGAAGTCAATG
1 GAAGGAAAAATGAAGTCAATG
681545 GAAGGAAAAATGAAGTCAATG
1 GAAGGAAAAATGAAGTCAATG
*
681566 GGAGGAAA
1 GAAGGAAA
681574 GCAACCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.04, G:0.32, T:0.12
Consensus pattern (21 bp):
GAAGGAAAAATGAAGTCAATG
Found at i:681667 original size:17 final size:19
Alignment explanation
Indices: 681642--681680 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
681632 TTGAAATGGT
681642 AATTGGATTA-AAATTTTA
1 AATTGGATTACAAATTTTA
681660 AATT-GATTACAAATTTTA
1 AATTGGATTACAAATTTTA
681678 AAT
1 AAT
681681 GTTGACAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (19 bp):
AATTGGATTACAAATTTTA
Found at i:683370 original size:22 final size:18
Alignment explanation
Indices: 683321--683359 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
683311 GAAAAATTTT
*
683321 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
683339 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
683357 GAA
1 GAA
683360 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:684835 original size:19 final size:19
Alignment explanation
Indices: 684809--684857 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
684799 AAATGCATGG
684809 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
684827 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
684846 ATAATTTTGTAT
1 TTAATTTTGTAT
684858 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:685541 original size:199 final size:198
Alignment explanation
Indices: 685199--686703 Score: 2201
Period size: 199 Copynumber: 7.8 Consensus size: 198
685189 AGGTAAACTT
* *
685199 AAGTGTCGATACATTTATAACAAGTGTAGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
685264 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAATAGGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC-AAAAG
* *
685329 TATCGAAACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTAAAAAACAAGTGCCC
130 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
685394 TAAA
195 TAAA
*
685398 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACGTCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
685463 TAGGTAAATTA-GCA-GTATAACTGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTACAAAA
66 TAGGTAAATTATTCATGTA-AAC-GGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC-AAA
* *
685526 AGTATCGACACAAATAGAACAAGTGTCGATACTTTTTATCCAGAATGTATATCAAAAACAAGTGC
128 AGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGC
685591 CCTAAA
193 CCTAAA
685597 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * *
685662 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAA
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC-AAAA
* *
685726 GTATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACATGTGCC
129 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
685791 CTAAA
194 CTAAA
685796 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAAGCATCGAAAACCATAATTATAATGTA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAA-CATCGAAAACCATAATTATAATGTA
* * *
685861 ATAGGTAAATTA-GCA-ATATAACGGTCTAAATATACCAG-TTTTGAG-AAA-ATG-GTACAAAA
65 ATAGGTAAATTATTCATGTA-AACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTAC-AAA
*
685920 AGTATCGAGACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAA--TATTTCAAAAACAAGTGC
128 AGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGC
685983 CCTAAA
193 CCTAAA
*
685989 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATTGAAAACC--AATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
686052 TAGGTAAATTATTCATGTAAACGGTATAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAA--
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAGT
686115 ATCGACACAAATAGAACAAGTGTCGATAC--TTTGTCCAGAATGTATTTC-AAAACAAGTGCCCT
131 ATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCT
686177 AAA
196 AAA
*
686180 AAGTGTCGATACATTTGTAACAAGTGTCGAT-CC-AAAATATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
686243 TA-GT--A--A---AT-T--A--G-C--AATATACC-GATTTTGAGGAAACATGTGTACAAAAGT
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAGT
* *
686291 A-CGACAC-AATAGAACAAGTGTCAATAC-TTTTGTCCAGAATG--TTTCAAAAACAAATGCCCT
131 ATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCT
686351 AAA
196 AAA
*
686354 AAGTGTCGATACA-TTGTTAACAAGTGTCGATCCCAAAAACATTG-AAACCATAATTATAATGT-
1 AAGTGTCGATACATTTG-TAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
* ** **
686416 CTAGGT-AATTATTCATGTAAACAATCTAAATATACTGGTTTTTTGAGAAAACAGGTGTACAAAA
65 ATAGGTAAATTATTCATGTAAACGGTCTAAATATACCAG-TTTTTGAGAAAACAGGTGTACAAAA
*
686480 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTAAAAAAC-AGTGCC
129 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
686544 CTAAA
194 CTAAA
686549 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCG-AAACCATAATTA-AATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
686612 TAGGTAAATTATTCATGTAAACGGTCTAAATATACC-GGTTTTGAGAAAACAGGTGTACAAAAGT
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAGT
*
686676 ATCGACACAGATAGAACAAGTGTCGATA
131 ATCGACACAAATAGAACAAGTGTCGATA
686704 TGTAATAGGT
Statistics
Matches: 1201, Mismatches: 57, Indels: 101
0.88 0.04 0.07
Matches are distributed among these distances:
173 7 0.01
174 87 0.07
175 49 0.04
176 9 0.01
178 2 0.00
180 1 0.00
181 2 0.00
182 2 0.00
183 2 0.00
184 1 0.00
186 1 0.00
187 1 0.00
188 1 0.00
189 20 0.02
190 40 0.03
191 107 0.09
192 59 0.05
193 84 0.07
194 78 0.06
195 122 0.10
196 42 0.03
197 6 0.00
198 15 0.01
199 419 0.35
200 42 0.03
201 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (198 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAGT
ATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCT
AAA
Found at i:686304 original size:174 final size:181
Alignment explanation
Indices: 686079--686703 Score: 713
Period size: 174 Copynumber: 3.4 Consensus size: 181
686069 TAAACGGTAT
*
686079 AAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAT-CGACACAAATAGAACAAGTGTCGATA
1 AAATATACC-GTTTTTGAGAAAACAAGTGTACAAAAGTACGACACAAATAGAACAAGTGTCGATA
686143 C-TTTGTCCAGAATGTATTTCAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGT
65 CTTTTGTCCAGAATGTATTTCAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGT
*
686207 CGAT-CC-AAAATATCGAAAACCATAATTATAATGTAATA-GTAAATTA-G-C
130 CGATCCCAAAAACATCG-AAACCATAATTATAATGTAATAGGTAAATTATGAC
* * * *
686255 -AATATACCGATTTTGAGGAAACATGTGTACAAAAGTACGACAC-AATAGAACAAGTGTCAATAC
1 AAATATACCGTTTTTGAGAAAACAAGTGTACAAAAGTACGACACAAATAGAACAAGTGTCGATAC
*
686318 TTTTGTCCAGAATG--TTTCAAAAACAAATGCCCTAAAAAGTGTCGATACA-TTGTTAACAAGTG
66 TTTTGTCCAGAATGTATTTC-AAAACAAGTGCCCTAAAAAGTGTCGATACATTTG-TAACAAGTG
* *
686380 TCGATCCCAAAAACATTGAAACCATAATTATAATGT-CTAGGTAATTATTCATGTAAACAATC
129 TCGATCCCAAAAACATCGAAACCATAATTATAATGTAATAGGTAA--ATT-ATG------A-C
* *
686442 TAAATATACTGGTTTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAAATAGAACAAGTGTCG
1 -AAATATAC-CG-TTTTTGAGAAAACAAGTGTACAAAAGTA-CGACACAAATAGAACAAGTGTCG
*
686507 ATACTTTTTGTCCAGAATGTATTT-AAAAAACAGTGCCCTAAAAAGTGTCGATACATTTGTAACA
62 ATAC-TTTTGTCCAGAATGTATTTCAAAACA-AGTGCCCTAAAAAGTGTCGATACATTTGTAACA
686571 AGTGTCGATCCCAAAAACATCGAAACCATAATTA-AATGTAATAGGTAAATTATTCATGTAAACG
125 AGTGTCGATCCCAAAAACATCGAAACCATAATTATAATGTAATAGGT-AA--ATT-ATG---A--
686635 GTC
181 --C
* * *
686638 TAAATATACCGGTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAGATAGAACAAGTGTCGAT
1 -AAATATACCGTTTTTGAGAAAACAAGTGTACAAAAGTA-CGACACAAATAGAACAAGTGTCGAT
686703 A
64 A
686704 TGTAATAGGT
Statistics
Matches: 391, Mismatches: 23, Indels: 52
0.84 0.05 0.11
Matches are distributed among these distances:
173 7 0.02
174 88 0.23
175 51 0.13
176 7 0.02
177 3 0.01
178 1 0.00
179 1 0.00
187 1 0.00
189 7 0.02
190 1 0.00
191 25 0.06
192 6 0.02
193 21 0.05
194 77 0.20
195 67 0.17
196 28 0.07
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (181 bp):
AAATATACCGTTTTTGAGAAAACAAGTGTACAAAAGTACGACACAAATAGAACAAGTGTCGATAC
TTTTGTCCAGAATGTATTTCAAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTC
GATCCCAAAAACATCGAAACCATAATTATAATGTAATAGGTAAATTATGAC
Found at i:686668 original size:194 final size:191
Alignment explanation
Indices: 686255--686703 Score: 683
Period size: 194 Copynumber: 2.3 Consensus size: 191
686245 GTAAATTAGC
* * * *
686255 AATATACCGATTTTGAGGAAACATGTGTACAAAAGTA-CGACAC-AATAGAACAAGTGTCAATAC
1 AATATACCGGTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAAATAGAACAAGTGTCGATAC
*
686318 TTTTGTCCAGAATGTTTCAAAAACAAATGCCCTAAAAAGTGTCGATACATTGTTAACAAGTGTCG
66 TTTTGTCCAGAATGTTTAAAAAACAAATGCCCTAAAAAGTGTCGATACATTGTTAACAAGTGTCG
* *
686383 ATCCCAAAAACATTGAAACCATAATTATAATGTCTAGGTAATTATTCATGTAAACAATCTA
131 ATCCCAAAAACATCGAAACCATAATTATAATGTATAGGTAATTATTCATGTAAACAATCTA
*
686444 AATATACTGGTTTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAAATAGAACAAGTGTCGAT
1 AATATACCGG--TTTTGAGAAAACAGGTGTACAAAAGTATCGACACAAATAGAACAAGTGTCGAT
*
686509 ACTTTTTGTCCAGAATGTATTTAAAAAAC-AGTGCCCTAAAAAGTGTCGATACATT-TGTAACAA
64 AC-TTTTGTCCAGAATG--TTTAAAAAACAAATGCCCTAAAAAGTGTCGATACATTGT-TAACAA
**
686572 GTGTCGATCCCAAAAACATCGAAACCATAATTA-AATGTAATAGGTAAATTATTCATGTAAACGG
125 GTGTCGATCCCAAAAACATCGAAACCATAATTATAATGT-ATAGGT-AATTATTCATGTAAACAA
686636 TCTA
188 TCTA
*
686640 AATATACCGGTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAGATAGAACAAGTGTCGATA
1 AATATACCGGTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAAATAGAACAAGTGTCGATA
686704 TGTAATAGGT
Statistics
Matches: 237, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
189 8 0.03
191 25 0.11
192 6 0.03
193 19 0.08
194 73 0.31
195 68 0.29
196 38 0.16
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (191 bp):
AATATACCGGTTTTGAGAAAACAGGTGTACAAAAGTATCGACACAAATAGAACAAGTGTCGATAC
TTTTGTCCAGAATGTTTAAAAAACAAATGCCCTAAAAAGTGTCGATACATTGTTAACAAGTGTCG
ATCCCAAAAACATCGAAACCATAATTATAATGTATAGGTAATTATTCATGTAAACAATCTA
Found at i:687178 original size:198 final size:198
Alignment explanation
Indices: 686840--687262 Score: 643
Period size: 198 Copynumber: 2.1 Consensus size: 198
686830 GTGCCCTAAA
* * *
686840 AAGTGTCGATCCCAAAAACATCAAAAACCATAATTATAATATAATAGGTAAATTAGCAATAAACC
1 AAGTGTCGATCCCAAAAACATC-GAAACCATAATTATAATATAATAGGTAAATTAACAATAAACA
*
686905 GGTCTAAATATACCGGGTTTTGAGAAAACAGGTGTTCAAAAAGTATCGACACAAATAGAACAAGT
65 GGTCTAAATATACCGGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGT
686970 GTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTAA-A-AAGTATCGATACATTT
130 GTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCC-AACACAAGTATCGATACATTT
*
687033 GTAAC
194 ATAAC
* *
687038 AAGTGTCGATCCCAAAAACATCGAAATCATAATTATAATGTAATAGGTAAATTAACAATATAACA
1 AAGTGTCGATCCCAAAAACATCGAAACCATAATTATAATATAATAGGTAAATTAACAATA-AACA
* * * * * *
687103 GGTCTAAATGTATCGGTTTTTGAGAAAACATGTGTACAAACAGTATCGACACAAATGGAACAAGT
65 GGTCTAAATATACCGGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGT
* * *
687168 GTCGATACTTTTTGTCCAGAATGTATTTCAGAACCAAGTGCGCAACACAAGTTTCGATACATTTA
130 GTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCAACACAAGTATCGATACATTTA
687233 TAAC
195 TAAC
* *
687237 AATTTTCGATCCCAAAAACATCGAAA
1 AAGTGTCGATCCCAAAAACATCGAAA
687263 AACATAATAA
Statistics
Matches: 204, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
197 36 0.18
198 125 0.61
199 43 0.21
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (198 bp):
AAGTGTCGATCCCAAAAACATCGAAACCATAATTATAATATAATAGGTAAATTAACAATAAACAG
GTCTAAATATACCGGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTG
TCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCAACACAAGTATCGATACATTTAT
AAC
Found at i:690373 original size:180 final size:172
Alignment explanation
Indices: 689995--690423 Score: 591
Period size: 180 Copynumber: 2.5 Consensus size: 172
689985 GTTGATAGTT
* **
689995 TCGAAACTTTATAAAAATGTATCGATCCATAACAAACAACAGGTCAAAAA-ATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATTAACAGGT-AAAAATATGACAAAACCGGT
* *
690059 CT--ATAATGACAAAACAGTAAAGCGCTACAGATATGTTGTAGTGTCGATACTTTATTATATGTA
65 CTCGA-AATGAC-AAACAGTAAAGAGCTACAGATATGTTGTAGTGTCGATACTTTATTATATATA
* * *
690122 CACTTTTAGAATTTAAAGAGAATAAGTTATAGCGCTAATAAAGTG
128 CACTTTTAGAATTTAAAGAAAAAAAGTTATAGCGCCAATAAAGTG
690167 TCGATACTTTATAAAAATGTATCGATCCATAACAATTAACAGGTAAAAATATGACAAAACCGGTC
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATTAACAGGTAAAAATATGACAAAACCGGTC
* *
690232 TCGAAATGACAAACTGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTATAAGTA
66 TCGAAATGACAAAC-AGTAAAGAGCTACAG-ATATGTTG-TAGTGTCGATACTTTATTAT-A-TA
690297 TCGACACTTTT-GAAATTTAAAAGAAAAAAAGTTATAGCGCCAATAAAGTG
126 T--ACACTTTTAG-AATTT-AAAGAAAAAAAGTTATAGCGCCAATAAAGTG
*
690347 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATC-G-
1 TCGATACTTTATAAAAATGTATCGATCCATAACAAT-TAACAGGTAAAAATATGACAAAACCGGT
*
690410 ATCGAAATGACAAA
65 CTCGAAATGACAAA
690424 ACCGGTAGTA
Statistics
Matches: 232, Mismatches: 12, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
171 5 0.02
172 61 0.26
173 18 0.08
174 9 0.04
175 20 0.09
176 1 0.00
177 2 0.01
178 1 0.00
179 26 0.11
180 65 0.28
181 24 0.10
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (172 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATTAACAGGTAAAAATATGACAAAACCGGTC
TCGAAATGACAAACAGTAAAGAGCTACAGATATGTTGTAGTGTCGATACTTTATTATATATACAC
TTTTAGAATTTAAAGAAAAAAAGTTATAGCGCCAATAAAGTG
Found at i:691471 original size:78 final size:79
Alignment explanation
Indices: 691384--691539 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 79
691374 AAAAAATAAT
* * * *
691384 ATTTTAGGTAGCG-TCCAATATTAATATTTCCTGTA-GAAAAATAATGTTTTAGGTA-ACACTTT
1 ATTTTAGGTAGCGCT-CAATATTAACATTTCCAGTATAAAAAATAATGTTCTAGGTAGA-ACTTT
*
691446 ACTGAAAATGTTAAAC
64 ACCGAAAATGTTAAAC
* * *
691462 ATTTTAGGTAGCGCTCAATATTAACATTTCCAGTATAAAAAATATTGTTCTATGTAGAGCTTTAC
1 ATTTTAGGTAGCGCTCAATATTAACATTTCCAGTATAAAAAATAATGTTCTAGGTAGAACTTTAC
691527 CGAAAATGTTAAA
66 CGAAAATGTTAAA
691540 AAAAGTATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 31 0.46
79 35 0.52
80 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (79 bp):
ATTTTAGGTAGCGCTCAATATTAACATTTCCAGTATAAAAAATAATGTTCTAGGTAGAACTTTAC
CGAAAATGTTAAAC
Found at i:692058 original size:245 final size:242
Alignment explanation
Indices: 691632--692121 Score: 910
Period size: 245 Copynumber: 2.0 Consensus size: 242
691622 ATTGAGGAGC
691632 TTTGAAGAGACTCCAAAAACATTTTTGATTTTTATTTCGAGGTTAAGTTATACCATGATCATTAA
1 TTTGAAGAGACTCCAAAAACATTTTTGATTTTTATTTCGAGGTTAAGTTATACCATGATCATTAA
691697 TGTTTGAATATATATTCATTTTTCTCATAAAATTTTAAAAATAATAAATTAATCATCAATGTTAT
66 TGTTTGAATATATATTCATTTTTCTCATAAAATTTTAAAAATAATAAATTAATCATCAATGTTAT
691762 TAATTTGTAACAAATTGATCATTCAAAGTTAGAAGTCACTAATGTGCGAGATGAAAAGTTGAGCT
131 TAATTTGTAACAAATTGATCATTCAAAGTTAGAAGTCACTAATGTGCGAGATGAAAAGTTGAGCT
691827 GGACCATTAACCGTTTACTTGACCTGTTGATCGCTT-ATAGGTCAAT
196 GGACCATTAACCGTTTACTTGACCTGTTGATCGCTTAATAGGTCAAT
*
691873 TTTGAAGAGACTCCAAAAACATTTTTGATTTTTATTTCTTAGGTTAAGTTATACACATGATCATT
1 TTTGAAGAGACTCCAAAAACATTTTTGATTTTTATTTC-GAGGTTAAGTTATAC-CATGATCATT
*
691938 AATGTTTGAAATATATATTCATTTTTCTCATTAAAATTTTAAAAATAATAAATTAATTATCAATG
64 AATGTTTG-AATATATATTCATTTTTCTCA-TAAAATTTTAAAAATAATAAATTAATCATCAATG
*
692003 TTATTAATTTGTAACAAATTGATCATTCGAAGTTAGAAGTCACTAATGTGCGAGATGAAAAGTTG
127 TTATTAATTTGTAACAAATTGATCATTCAAAGTTAGAAGTCACTAATGTGCGAGATGAAAAGTTG
692068 AGCTGGACCATTAACCGTTTACTTGACCTGTTGATCGCTTAATAGGTCAAT
192 AGCTGGACCATTAACCGTTTACTTGACCTGTTGATCGCTTAATAGGTCAAT
692119 TTT
1 TTT
692122 TCAATTTTGA
Statistics
Matches: 241, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
241 38 0.16
242 14 0.06
243 18 0.07
244 21 0.09
245 137 0.57
246 13 0.05
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (242 bp):
TTTGAAGAGACTCCAAAAACATTTTTGATTTTTATTTCGAGGTTAAGTTATACCATGATCATTAA
TGTTTGAATATATATTCATTTTTCTCATAAAATTTTAAAAATAATAAATTAATCATCAATGTTAT
TAATTTGTAACAAATTGATCATTCAAAGTTAGAAGTCACTAATGTGCGAGATGAAAAGTTGAGCT
GGACCATTAACCGTTTACTTGACCTGTTGATCGCTTAATAGGTCAAT
Found at i:693170 original size:5 final size:5
Alignment explanation
Indices: 693133--693157 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
693123 ACCGGTCACA
693133 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
693158 TTTACCCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:693182 original size:18 final size:18
Alignment explanation
Indices: 693161--693201 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
693151 CGACCCGTTT
*
693161 ACCCGACCCGTTGACCTG
1 ACCCGACCCGTTGACCCG
693179 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
693197 ACCCG
1 ACCCG
693202 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.49, G:0.22, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:693185 original size:31 final size:31
Alignment explanation
Indices: 693142--693216 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
693132 AACCCGACCC
* *
693142 GACCCGACCCGACCCGTTTACCCGACCCGTT
1 GACCTGACCCGACCCGTTGACCCGACCCGTT
693173 GACCTGACCCGACCCGTTGACCCGACCCGTT
1 GACCTGACCCGACCCGTTGACCCGACCCGTT
693204 GACCGTTGACCCG
1 GACC--TGACCCG
693217 TTGACCGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 33 0.82
33 7 0.17
ACGTcount: A:0.16, C:0.45, G:0.23, T:0.16
Consensus pattern (31 bp):
GACCTGACCCGACCCGTTGACCCGACCCGTT
Found at i:693194 original size:8 final size:8
Alignment explanation
Indices: 693183--693229 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
693173 GACCTGACCC
693183 GACCCGTT
1 GACCCGTT
693191 GACCC---
1 GACCCGTT
693196 GACCCGTT
1 GACCCGTT
693204 GA-CCGTT
1 GACCCGTT
693211 GACCCGTT
1 GACCCGTT
693219 GA-CCGTT
1 GACCCGTT
693226 GACC
1 GACC
693230 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:693204 original size:13 final size:13
Alignment explanation
Indices: 693147--693222 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
693137 GACCCGACCC
693147 GACCCGACCCGTT
1 GACCCGACCCGTT
*
693160 TACCCGACCCGTTGACCT
1 GACCCGACCCG-T----T
693178 GACCCGACCCGTT
1 GACCCGACCCGTT
693191 GACCCGACCCGTT
1 GACCCGACCCGTT
*
693204 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
693219 GACC
1 GACC
693223 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.53
14 1 0.02
15 12 0.23
17 1 0.02
18 11 0.21
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:693211 original size:7 final size:7
Alignment explanation
Indices: 693199--693230 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
693189 TTGACCCGAC
693199 CCGTTGA
1 CCGTTGA
693206 CCGTTGA
1 CCGTTGA
693213 CCCGTTGA
1 -CCGTTGA
693221 CCGTTGA
1 CCGTTGA
693228 CCG
1 CCG
693231 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:693216 original size:15 final size:15
Alignment explanation
Indices: 693183--693229 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
693173 GACCTGACCC
*
693183 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
693196 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
693211 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
693226 GACC
1 GACC
693230 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:698159 original size:13 final size:13
Alignment explanation
Indices: 698159--698234 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
698149 CCGTTGACCC
698159 GACCCGACCCGTT
1 GACCCGACCCGTT
*
698172 TACCCGACCCGTTGACCT
1 GACCCGACCCG-T----T
698190 GACCCGACCCGTT
1 GACCCGACCCGTT
698203 GACCCGACCCGTT
1 GACCCGACCCGTT
*
698216 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
698231 GACC
1 GACC
698235 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.53
14 1 0.02
15 12 0.23
17 1 0.02
18 11 0.21
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:698160 original size:18 final size:18
Alignment explanation
Indices: 698137--698213 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
698127 ACCGGTCACA
698137 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
698155 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
698172 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
698186 ACCTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
698204 ACCCGACCCG
1 ACCCGACCCG
698214 TTGACCGTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
13 12 0.24
18 39 0.76
ACGTcount: A:0.17, C:0.49, G:0.21, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:698180 original size:31 final size:31
Alignment explanation
Indices: 698141--698219 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
698131 GTCACAACCC
698141 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
698172 TACCCGACCCGTTGACCTGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
698203 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
698220 GTTGACCCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:698206 original size:8 final size:8
Alignment explanation
Indices: 698195--698241 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
698185 GACCTGACCC
698195 GACCCGTT
1 GACCCGTT
698203 GACCC---
1 GACCCGTT
698208 GACCCGTT
1 GACCCGTT
698216 GA-CCGTT
1 GACCCGTT
698223 GACCCGTT
1 GACCCGTT
698231 GA-CCGTT
1 GACCCGTT
698238 GACC
1 GACC
698242 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:698223 original size:7 final size:7
Alignment explanation
Indices: 698211--698242 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
698201 TTGACCCGAC
698211 CCGTTGA
1 CCGTTGA
698218 CCGTTGA
1 CCGTTGA
698225 CCCGTTGA
1 -CCGTTGA
698233 CCGTTGA
1 CCGTTGA
698240 CCG
1 CCG
698243 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:698228 original size:15 final size:15
Alignment explanation
Indices: 698195--698241 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
698185 GACCTGACCC
*
698195 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
698208 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
698223 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
698238 GACC
1 GACC
698242 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:704562 original size:29 final size:30
Alignment explanation
Indices: 704509--704570 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
704499 ATAATTAAAT
* *
704509 AATTCTTATATTTTTATTAAAATTATATGA
1 AATTCATATATTTTTATAAAAATTATATGA
704539 AATTCATATA-TTTTATAAAAATTATATGA
1 AATTCATATATTTTTATAAAAATTATATGA
704568 AAT
1 AAT
704571 AATTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (30 bp):
AATTCATATATTTTTATAAAAATTATATGA
Found at i:704577 original size:29 final size:31
Alignment explanation
Indices: 704514--704577 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
704504 TAAATAATTC
* *
704514 TTATATTTTTATTAAAATTATATGAAATTCA
1 TTATATTTTTATAAAAATTATATGAAATTAA
704545 -TATA-TTTTATAAAAATTATATGAAA-TAA
1 TTATATTTTTATAAAAATTATATGAAATTAA
704573 TTATA
1 TTATA
704578 AAAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 24 0.80
30 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATATTTTTATAAAAATTATATGAAATTAA
Found at i:704891 original size:16 final size:16
Alignment explanation
Indices: 704870--704912 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
704860 ATAAAAATAA
704870 TTATTTAATTATTTTT
1 TTATTTAATTATTTTT
704886 TTATTTCTAATTATTTTT
1 TTA-TT-TAATTATTTTT
*
704904 TAATTTAAT
1 TTATTTAAT
704913 AATGATACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.29
17 4 0.17
18 13 0.54
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTAATTATTTTT
Found at i:704898 original size:18 final size:18
Alignment explanation
Indices: 704875--704909 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
704865 AATAATTATT
*
704875 TAATTATTTTTTTATTTC
1 TAATTATTTTTTAATTTC
704893 TAATTATTTTTTAATTT
1 TAATTATTTTTTAATTT
704910 AATAATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TAATTATTTTTTAATTTC
Found at i:706924 original size:13 final size:13
Alignment explanation
Indices: 706906--706931 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
706896 TATTACTCCA
706906 AGTTTTTCAAATG
1 AGTTTTTCAAATG
706919 AGTTTTTCAAATG
1 AGTTTTTCAAATG
706932 CCAATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
AGTTTTTCAAATG
Found at i:712949 original size:20 final size:22
Alignment explanation
Indices: 712899--712955 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
712889 TAGTGTAGGA
712899 GGAATCGATACCCCCTTACAGG
1 GGAATCGATACCCCCTTACAGG
* * *
712921 GGAACCGATTCCCCCTT-TA-G
1 GGAATCGATACCCCCTTACAGG
712941 GGAATCGATACCCCC
1 GGAATCGATACCCCC
712956 ACTAGGTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 14 0.47
21 1 0.03
22 15 0.50
ACGTcount: A:0.25, C:0.35, G:0.21, T:0.19
Consensus pattern (22 bp):
GGAATCGATACCCCCTTACAGG
Found at i:712961 original size:20 final size:20
Alignment explanation
Indices: 712899--712961 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
712889 TAGTGTAGGA
712899 GGAATCGATACCCCCTTAC-AGG
1 GGAATCGATACCCCC--ACTA-G
* * **
712921 GGAACCGATTCCCCCTTTAG
1 GGAATCGATACCCCCACTAG
712941 GGAATCGATACCCCCACTAG
1 GGAATCGATACCCCCACTAG
712961 G
1 G
712962 TTTGGTTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 18 0.56
21 1 0.03
22 13 0.41
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.19
Consensus pattern (20 bp):
GGAATCGATACCCCCACTAG
Found at i:716015 original size:16 final size:16
Alignment explanation
Indices: 715994--716037 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
715984 AAAATTCCAA
*
715994 AAGAATAAGGAAGAAG
1 AAGAATAAGGAAGAAC
*
716010 AAGAATAAGAGAATAAC
1 AAGAATAAG-GAAGAAC
716027 AAGAA-AAGGAA
1 AAGAATAAGGAA
716038 TGAGGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 10 0.40
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (16 bp):
AAGAATAAGGAAGAAC
Found at i:719746 original size:28 final size:28
Alignment explanation
Indices: 719714--719776 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
719704 AATTAATCAT
*
719714 TAATTAAAATTTAATTCTACTTTTTATA
1 TAATTAAAATTTAATTATACTTTTTATA
* *
719742 TAATTATAATTTAATTATACTTTTTTTA
1 TAATTAAAATTTAATTATACTTTTTATA
*
719770 TTATTAA
1 TAATTAA
719777 GAATAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTAAAATTTAATTATACTTTTTATA
Found at i:720141 original size:5 final size:5
Alignment explanation
Indices: 720113--720168 Score: 85
Period size: 5 Copynumber: 10.6 Consensus size: 5
720103 CGTACTACCA
720113 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGACC
720161 CGACC CGA
1 CGACC CGA
720169 GACGAGACGA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 33 0.66
6 17 0.34
ACGTcount: A:0.25, C:0.55, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:720693 original size:6 final size:6
Alignment explanation
Indices: 720672--720714 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
720662 TCTCGTCTCG
720672 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
720715 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:720868 original size:19 final size:19
Alignment explanation
Indices: 720808--720870 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 19
720798 GCGATTTTGG
*
720808 TCGCAACGAATTTGGAATAAA
1 TCGCAACGAATTTGGACT--A
*
720829 TCGCAACGCGAACTTT-AACTA
1 TCGCAA--CGAA-TTTGGACTA
720850 TCGCAACGAATTTGGACTA
1 TCGCAACGAATTTGGACTA
720869 TC
1 TC
720871 ACAATGCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 3 0.09
19 10 0.29
21 13 0.37
23 6 0.17
24 3 0.09
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (19 bp):
TCGCAACGAATTTGGACTA
Found at i:720929 original size:21 final size:21
Alignment explanation
Indices: 720903--720962 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
720893 AATACGATAG
*
720903 TCGACTATCGTAATGCGAACT
1 TCGACTATCGCAATGCGAACT
* *
720924 TGGACTATCGCAATGTGAACT
1 TCGACTATCGCAATGCGAACT
*
720945 TCGACTATCGCATTGCGA
1 TCGACTATCGCAATGCGA
720963 TTTACATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (21 bp):
TCGACTATCGCAATGCGAACT
Found at i:721007 original size:21 final size:20
Alignment explanation
Indices: 720980--721095 Score: 101
Period size: 21 Copynumber: 5.6 Consensus size: 20
720970 ATTCGCATTG
*
720980 TTCGCATTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCAAC
*
721000 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGT-CA-AC
*
721021 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAC
*
721042 TTCGCATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTC-AAC
* *
721063 TTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTC-AAC
*
721084 TTCGCGTTGCGA
1 TTCGCATTGCGA
721096 ATCTGGAAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
20 16 0.20
21 65 0.79
22 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCAAC
Found at i:722042 original size:5 final size:5
Alignment explanation
Indices: 721957--722042 Score: 50
Period size: 5 Copynumber: 16.4 Consensus size: 5
721947 AATCTTAATT
* * * * *
721957 TTAAA -TAAA TTAAA -TAAA TTACA TTAATTA TTATA TTTAA TAAAA ATATAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAA--A TTAAA TTAAA TTAAA TTA-AA
*
722008 TTAAA TTATAA TTATA TTAAAA TTAGAA TTAAA TT
1 TTAAA TTA-AA TTAAA TT-AAA TTA-AA TTAAA TT
722043 TTAATTAATG
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
4 8 0.13
5 31 0.51
6 18 0.30
7 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:722358 original size:80 final size:80
Alignment explanation
Indices: 722274--722474 Score: 285
Period size: 80 Copynumber: 2.5 Consensus size: 80
722264 GGTGAAAAAC
* * **
722274 TACATATTTAGTATCTAATTTAATATTTTTGTTCCATTTTGATATTTAATAATTACCAAGCAAAA
1 TACATATTTAGTATCTAAATTATTATTTTTGTTCCATTTTGATACCTAATAATTACCAAGCAAAA
*
722339 AAAGCTAGGATGAAT
66 AAAGCTAGGATAAAT
* * * * * * *
722354 TACATATTTAGTATTTAAATTATTATTTTTATTTCATTTCGGTACCTAATAATTACCATGTAAAA
1 TACATATTTAGTATCTAAATTATTATTTTTGTTCCATTTTGATACCTAATAATTACCAAGCAAAA
722419 AAAGCTAGGATAAAT
66 AAAGCTAGGATAAAT
*
722434 TACATATTTAGTATCTAAATTATTATTTTTGTTCTATTTTG
1 TACATATTTAGTATCTAAATTATTATTTTTGTTCCATTTTG
722475 GTAACTAAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 104 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (80 bp):
TACATATTTAGTATCTAAATTATTATTTTTGTTCCATTTTGATACCTAATAATTACCAAGCAAAA
AAAGCTAGGATAAAT
Found at i:723358 original size:70 final size:70
Alignment explanation
Indices: 723245--723427 Score: 339
Period size: 70 Copynumber: 2.6 Consensus size: 70
723235 TTGTTTTAAA
* *
723245 AAAACAATCCCACATGACTAAGAAACATAGAAGAGTATCCCAAAAGTTTAAAGAGTAAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
723310 AGAAC
66 AGAAC
*
723315 AAAACAATCCCACATGGCTAAGAAACATAGAAGAACATCCCAAAAGTTTAAAGAGTAAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
723380 AGAAC
66 AGAAC
723385 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
723428 CTTACTTCTA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 109 1.00
ACGTcount: A:0.52, C:0.19, G:0.14, T:0.15
Consensus pattern (70 bp):
AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
AGAAC
Found at i:723526 original size:24 final size:24
Alignment explanation
Indices: 723494--723549 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
723484 CTATTCTTTC
723494 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
723518 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
723542 GCTTCAAT
1 GCTTCAAT
723550 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:723808 original size:30 final size:30
Alignment explanation
Indices: 723772--723837 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
723762 GGTGAACCGG
*
723772 CGGTTCAAAC-CGATTTTGCCGGTTTTCAGC
1 CGGTTC-AACTCGATTTTCCCGGTTTTCAGC
*
723802 CGGTTCACCTCGATTTTCCCGGTTTTCAGC
1 CGGTTCAACTCGATTTTCCCGGTTTTCAGC
723832 CGGTTC
1 CGGTTC
723838 TTCCGGTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.12, C:0.30, G:0.23, T:0.35
Consensus pattern (30 bp):
CGGTTCAACTCGATTTTCCCGGTTTTCAGC
Found at i:723845 original size:20 final size:20
Alignment explanation
Indices: 723820--723858 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
723810 CTCGATTTTC
723820 CCGGTT-TTCAGCCGGTTCTT
1 CCGGTTCTTCA-CCGGTTCTT
*
723840 CCGGTTCTTTACCGGTTCT
1 CCGGTTCTTCACCGGTTCT
723859 GTGTAATCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.05, C:0.31, G:0.23, T:0.41
Consensus pattern (20 bp):
CCGGTTCTTCACCGGTTCTT
Found at i:726792 original size:123 final size:119
Alignment explanation
Indices: 726575--726798 Score: 279
Period size: 123 Copynumber: 1.8 Consensus size: 119
726565 ATGATTAGTT
* * ** ***
726575 CTCTCTCAAAAGGGGAAAAAACTTGTAATGCTTCTTTTGATGGATTTTGACCTTAATCTGTGTCG
1 CTCTCTCAAAAGGGAAAAAAACTTGTAATGCTTCTTTTGATGGAGTTTGACCCAAATCTGCCCCG
***
726640 TTGTTGGTTACTTTATTTGAAAGTTCCTTCTAGTATGACCTGGCAATTATTTGTC
66 TTGTTGGTTACTTTATTTGAAAAAGCCTTCTA-TATGACCTGGCAATTATTTGTC
* *
726695 CTCTCTCAAAAGAATGGAAAAAAACTTGTAATGTTTC-TTTGATTGAGTTTGACCCAAATCTGCC
1 CTCTCTCAAAAG---GGAAAAAAACTTGTAATGCTTCTTTTGATGGAGTTTGACCCAAATCTGCC
*
726759 CCATTTGTTGGTTACTTTATTTGAAAAAGCCTTCTATATG
63 CC-GTTGTTGGTTACTTTATTTGAAAAAGCCTTCTATATG
726799 TTAGTAGACA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
120 12 0.14
122 26 0.30
123 49 0.56
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (119 bp):
CTCTCTCAAAAGGGAAAAAAACTTGTAATGCTTCTTTTGATGGAGTTTGACCCAAATCTGCCCCG
TTGTTGGTTACTTTATTTGAAAAAGCCTTCTATATGACCTGGCAATTATTTGTC
Done.