Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008943.1 Hibiscus syriacus cultivar Beakdansim tig00112264_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: 1742779
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 3 of 5
Found at i:731646 original size:19 final size:20
Alignment explanation
Indices: 731622--731667 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
731612 CAAAATGATC
* *
731622 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCAAACAT
731641 CAATTTCAACACTCAAACAT
1 CAATTTCAACACTCAAACAT
*
731661 TAATTTC
1 CAATTTC
731668 CAGTATAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (20 bp):
CAATTTCAACACTCAAACAT
Found at i:732584 original size:27 final size:27
Alignment explanation
Indices: 732553--732633 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 27
732543 TTTGTTGAGC
*
732553 TCTTTTCTTC-TCTTTGATTTCTAATTT
1 TCTTTTCTTCAAC-TTGATTTCTAATTT
732580 TCTTTTCTTCAAACTTGATTTCTAATTT
1 TCTTTTCTTC-AACTTGATTTCTAATTT
732608 TCTTTTCTTCAAGCTTGATTTC-AATT
1 TCTTTTCTTCAA-CTTGATTTCTAATT
732634 CTCAAAAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
27 16 0.32
28 33 0.66
29 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.59
Consensus pattern (27 bp):
TCTTTTCTTCAACTTGATTTCTAATTT
Found at i:732603 original size:28 final size:28
Alignment explanation
Indices: 732566--732633 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
732556 TTTCTTCTCT
732566 TTGATTTCTAATTTTCTTTTCTTCAAAC
1 TTGATTTCTAATTTTCTTTTCTTCAAAC
*
732594 TTGATTTCTAATTTTCTTTTCTTCAAGC
1 TTGATTTCTAATTTTCTTTTCTTCAAAC
732622 TTGATTTC-AATT
1 TTGATTTCTAATT
732634 CTCAAAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 4 0.10
28 35 0.90
ACGTcount: A:0.21, C:0.16, G:0.06, T:0.57
Consensus pattern (28 bp):
TTGATTTCTAATTTTCTTTTCTTCAAAC
Found at i:736829 original size:20 final size:20
Alignment explanation
Indices: 736804--736853 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
736794 TAGTGTAGTA
736804 GTATCGATACTAAGAGAAAG
1 GTATCGATACTAAGAGAAAG
* *
736824 GTATCGAGACTGAGAGAAAG
1 GTATCGATACTAAGAGAAAG
736844 GTATCGATAC
1 GTATCGATAC
736854 CATAGTATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (20 bp):
GTATCGATACTAAGAGAAAG
Found at i:736894 original size:20 final size:22
Alignment explanation
Indices: 736842--736895 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
736832 ACTGAGAGAA
736842 AGGTATCGATACCATAGTATAG
1 AGGTATCGATACCATAGTATAG
* *
736864 AAGTATCGATACCATGGTA-AG
1 AGGTATCGATACCATAGTATAG
*
736885 -GGTATTGATAC
1 AGGTATCGATAC
736896 TATTAAGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (22 bp):
AGGTATCGATACCATAGTATAG
Found at i:737432 original size:81 final size:81
Alignment explanation
Indices: 737290--737784 Score: 729
Period size: 81 Copynumber: 6.1 Consensus size: 81
737280 ACTATTTTAA
** * * * * *
737290 AGTAAAAGATTAATAGTTTAGCTGTGCATTTGATAGAAAGGTGACAATTATGCTAGGTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
737355 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
737371 AGTAAGAGATTAATAGCCTAGCTGTGCATTTGATAGAAAAGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
737436 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
737452 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCTGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
737517 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
737533 AGTAAAATATTAATAGCCTAGCTGTGTATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
737598 AGGATAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
737614 AGTAAAAGATTAATAGCCTAGCTATGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
737679 AGGTTAAATATCTTTG
66 AGGTTAAATACCTTTG
* * * * * *
737695 AGTAAAAGATTAATATCCTAGCCGTGCAATTGGCAGAAATGTGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
737760 AGGCTAAATGCCTTTG
66 AGGTTAAATACCTTTG
*
737776 GGTAAAAGA
1 AGTAAAAGA
737785 CTAAAGGCTT
Statistics
Matches: 375, Mismatches: 39, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 375 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:737876 original size:45 final size:44
Alignment explanation
Indices: 737812--737899 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 44
737802 CATTTTGATA
* * * *
737812 TAAACGGTGCATAATTGGTATGAATGGATGCCATAAATGAAAATT
1 TAAACAGTGCATAATTGGTATGAAAGAATGCC-CAAATGAAAATT
*
737857 TAAACAGTGCATAATTGGTATTAAAGAATGCCCAAATGAAAAT
1 TAAACAGTGCATAATTGGTATGAAAGAATGCCCAAATGAAAAT
737900 ACAAAACAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 10 0.26
45 28 0.74
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.27
Consensus pattern (44 bp):
TAAACAGTGCATAATTGGTATGAAAGAATGCCCAAATGAAAATT
Found at i:747660 original size:9 final size:9
Alignment explanation
Indices: 747638--747686 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
747628 GTAAGCACTC
747638 AAAAAGAAG
1 AAAAAGAAG
747647 AAAAAAGAAG
1 -AAAAAGAAG
747657 AAAAA-AAG
1 AAAAAGAAG
*
747665 AAAGAGAAG
1 AAAAAGAAG
*
747674 AAAAACAAG
1 AAAAAGAAG
747683 AAAA
1 AAAA
747687 GTTGAAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.20
9 19 0.54
10 9 0.26
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:747661 original size:11 final size:10
Alignment explanation
Indices: 747638--747678 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
747628 GTAAGCACTC
747638 AAAAAGAAGA
1 AAAAAGAAGA
747648 AAAAAGAAG-
1 AAAAAGAAGA
747657 AAAAA-AAG-
1 AAAAAGAAGA
*
747665 AAAGAGAAGA
1 AAAAAGAAGA
747675 AAAA
1 AAAA
747679 CAAGAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.26
9 8 0.30
10 12 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAGAAGA
Found at i:753196 original size:11 final size:10
Alignment explanation
Indices: 753182--753252 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 10
753172 TATTAACATG
753182 ATATAAACCAC
1 ATATAAA-CAC
*
753193 ATATAAACATG
1 ATATAAACA-C
753204 ATATAAACCAC
1 ATATAAA-CAC
*
753215 ATATAAA-AT
1 ATATAAACAC
* *
753224 ATATTAACATG
1 ATATAAACA-C
753235 ATATAAACCAC
1 ATATAAA-CAC
753246 ATATAAA
1 ATATAAA
753253 ATTTATTACC
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
9 7 0.15
10 3 0.06
11 34 0.71
12 4 0.08
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.25
Consensus pattern (10 bp):
ATATAAACAC
Found at i:753201 original size:22 final size:22
Alignment explanation
Indices: 753171--753221 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
753161 GTGTTATCAT
*
753171 ATATTAACATGATATAAACCAC
1 ATATAAACATGATATAAACCAC
753193 ATATAAACATGATATAAACCAC
1 ATATAAACATGATATAAACCAC
753215 ATATAAA
1 ATATAAA
753222 ATATATTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.55, C:0.16, G:0.04, T:0.25
Consensus pattern (22 bp):
ATATAAACATGATATAAACCAC
Found at i:753235 original size:31 final size:31
Alignment explanation
Indices: 753193--753260 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
753183 TATAAACCAC
*
753193 ATATAAACATGATATAAACCACATATAAAAT
1 ATATTAACATGATATAAACCACATATAAAAT
753224 ATATTAACATGATATAAACCACATATAAAAT
1 ATATTAACATGATATAAACCACATATAAAAT
*
753255 TTATTA
1 ATATTA
753261 CCAATATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (31 bp):
ATATTAACATGATATAAACCACATATAAAAT
Found at i:753303 original size:6 final size:6
Alignment explanation
Indices: 753292--753346 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
753282 ACTAGCTCTG
* * *
753292 TAAAAA TAAAAA TAAAAA TAAAAG T-GAAA T-AAAA TAAATAA -ATAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA-AA TAAAAA
753338 TAAAAA TAA
1 TAAAAA TAA
753347 TAACCAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 9 0.22
6 29 0.73
7 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:753308 original size:5 final size:5
Alignment explanation
Indices: 753294--753374 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
753284 TAGCTCTGTA
*
753294 AAAAT AAAAAT AAAAAT AAAAGT GAAAT AAAAT -AAAT -AAAT -AAAT
1 AAAAT -AAAAT -AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT
* * * *
753339 AAAAAT AATAAC CAAAT AAAAC AAAAT AAAAC AAAA
1 -AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAA
753375 ATCAAGTGAC
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
4 12 0.19
5 28 0.45
6 22 0.35
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:753348 original size:17 final size:17
Alignment explanation
Indices: 753301--753359 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
753291 GTAAAAATAA
*
753301 AAATAAAAATAA-AAGT
1 AAATAAAAATAATAAAT
753317 GAAAT-AAAATAAATAAAT
1 -AAATAAAAAT-AATAAAT
**
753335 AAATAAAAATAATAACC
1 AAATAAAAATAATAAAT
753352 AAATAAAA
1 AAATAAAA
753360 CAAAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.14
17 23 0.64
18 8 0.22
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
AAATAAAAATAATAAAT
Found at i:753356 original size:34 final size:35
Alignment explanation
Indices: 753294--753368 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 35
753284 TAGCTCTGTA
**
753294 AAAAT-AA-AAATAAAAATAAAAGTGAAATAAAA-
1 AAAATAAATAAATAAAAATAAAAGCCAAATAAAAC
*
753326 TAAATAAATAAATAAAAATAATAA-CCAAATAAAAC
1 AAAATAAATAAATAAAAATAA-AAGCCAAATAAAAC
753361 AAAATAAA
1 AAAATAAA
753369 ACAAAAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 4 0.11
33 2 0.06
34 20 0.57
35 9 0.26
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (35 bp):
AAAATAAATAAATAAAAATAAAAGCCAAATAAAAC
Found at i:755173 original size:53 final size:53
Alignment explanation
Indices: 755109--755217 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
755099 TGCTAATAAG
* *
755109 TAACTACATAATAATAGTAAATATTATATAGCACGCATAATTAACAATAAGGA
1 TAACTACATAATAATAGTAAATATTATATAGCACGCATAATAAACAATAAAGA
* * *
755162 TAACTACATAATAATAGTAAATATTATATTGTATGCATAATAAACAATAAAGA
1 TAACTACATAATAATAGTAAATATTATATAGCACGCATAATAAACAATAAAGA
755215 TAA
1 TAA
755218 AAAGAGTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.30
Consensus pattern (53 bp):
TAACTACATAATAATAGTAAATATTATATAGCACGCATAATAAACAATAAAGA
Found at i:755833 original size:12 final size:12
Alignment explanation
Indices: 755818--755843 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
755808 TTTGAGCAAA
755818 ATTTTCTGCCCT
1 ATTTTCTGCCCT
755830 ATTTTCTGCCCT
1 ATTTTCTGCCCT
755842 AT
1 AT
755844 CCATGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.31, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTTTCTGCCCT
Found at i:761252 original size:18 final size:18
Alignment explanation
Indices: 761231--761298 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
761221 TTGGTCCTAA
761231 TTTTAAAATTTAAGATAT
1 TTTTAAAATTTAAGATAT
*
761249 TTTTAACAAGTTAA-A-A-
1 TTTTAA-AATTTAAGATAT
* **
761265 --TAAAAATAAAAGATAT
1 TTTTAAAATTTAAGATAT
761281 TTTTAAAATTTAAGATAT
1 TTTTAAAATTTAAGATAT
761299 ATAAAATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
13 4 0.11
14 4 0.11
15 1 0.03
17 1 0.03
18 20 0.56
19 6 0.17
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.41
Consensus pattern (18 bp):
TTTTAAAATTTAAGATAT
Found at i:762501 original size:27 final size:28
Alignment explanation
Indices: 762471--762542 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
762461 TATATCAACC
*
762471 GCACTAGAAAGTGCTCAT-CAGTAATTT
1 GCACTAGAAAGTGCTCATCCAGTAATCT
762498 GCACTCA-AAAGTGCTC-TCCAGTAATCT
1 GCACT-AGAAAGTGCTCATCCAGTAATCT
*
762525 GCACTAGAAAGTGTTCAT
1 GCACTAGAAAGTGCTCAT
762543 ATTGCTTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.05
27 35 0.90
28 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (28 bp):
GCACTAGAAAGTGCTCATCCAGTAATCT
Found at i:763904 original size:46 final size:46
Alignment explanation
Indices: 763848--763939 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
763838 GAATCTTACT
* *
763848 AACATAAGCACACAATATGAAATAAATTCCTAAAAATCTTTAGATG
1 AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCATTAGATG
* *
763894 AACATAAGCACACAATAGGAAATATATTCCTATAAATCATTAGATG
1 AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCATTAGATG
763940 TTCATTCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (46 bp):
AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCATTAGATG
Found at i:764324 original size:20 final size:20
Alignment explanation
Indices: 764299--764339 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
764289 TCCAATTTTG
*
764299 ACATTCTGACATCAAATTCA
1 ACATTCTAACATCAAATTCA
*
764319 ACATTCTAACATTAAATTCA
1 ACATTCTAACATCAAATTCA
764339 A
1 A
764340 GCATAGTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (20 bp):
ACATTCTAACATCAAATTCA
Found at i:771558 original size:46 final size:46
Alignment explanation
Indices: 771502--771593 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
771492 GAATCTTACT
771502 AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCTTTAGATG
1 AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCTTTAGATG
* *
771548 AACATAAGCACACAATAGGAAATATATTCCTATAAATCTTTAGATG
1 AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCTTTAGATG
771594 CTCATTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (46 bp):
AACATAAGCACACAATAGGAAATAAATTCCTAAAAATCTTTAGATG
Found at i:771979 original size:20 final size:20
Alignment explanation
Indices: 771954--771992 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
771944 CAATTTTCAC
771954 ATTCTAACATCAAATTCAAT
1 ATTCTAACATCAAATTCAAT
*
771974 ATTCTAACATTAAATTCAA
1 ATTCTAACATCAAATTCAA
771993 GCATAGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTCTAACATCAAATTCAAT
Found at i:775845 original size:27 final size:28
Alignment explanation
Indices: 775810--775880 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
775800 TTATTAATCA
*
775810 CACTAGAAAGTGCTCAT-AAGTAATTTG
1 CACTAGAAAGTGCTCATCAAGTAATATG
*
775837 CACTCGAAAGTGCTC-TCAAGTAATATG
1 CACTAGAAAGTGCTCATCAAGTAATATG
*
775864 CACTAGAAAGTGTTCAT
1 CACTAGAAAGTGCTCAT
775881 TTAGCTCGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (28 bp):
CACTAGAAAGTGCTCATCAAGTAATATG
Found at i:776372 original size:20 final size:21
Alignment explanation
Indices: 776344--776384 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
776334 CTTATCATGC
*
776344 AATACAATTGTA-TTAAAATT
1 AATACAATTGAATTTAAAATT
*
776364 AATATAATTGAATTTAAAATT
1 AATACAATTGAATTTAAAATT
776385 CAATTAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
AATACAATTGAATTTAAAATT
Found at i:776986 original size:42 final size:43
Alignment explanation
Indices: 776927--777062 Score: 156
Period size: 42 Copynumber: 3.2 Consensus size: 43
776917 TATCTAGTTG
*
776927 GAAGAATATCTCACATGGCTTTTCC-GCGAAGGGGAATCAT-T
1 GAAGAATATCTTACATGGCTTTTCCAGCGAAGGGGAATCATCT
* *
776968 CGAAGAATATCTTACATGG-TTTTCCATCGAAGGGGAGTCATCT
1 -GAAGAATATCTTACATGGCTTTTCCAGCGAAGGGGAATCATCT
* * * *
777011 GAAGAGTAT-TTCACTTGGC-TATCCAGCGAAGGGGAATCACCT
1 GAAGAATATCTT-ACATGGCTTTTCCAGCGAAGGGGAATCATCT
777053 GAAGAATATC
1 GAAGAATATC
777063 CCACTTGACT
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
41 8 0.10
42 70 0.89
43 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
GAAGAATATCTTACATGGCTTTTCCAGCGAAGGGGAATCATCT
Found at i:778238 original size:24 final size:23
Alignment explanation
Indices: 778176--778247 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
778166 TATACATACG
* *
778176 TAGTTTCAAAA-TTATATATAGCA
1 TAGTTTTAAAACTTATATATA-TA
* *
778199 TTGTTTT-AAACATATATGATATA
1 TAGTTTTAAAACTTATAT-ATATA
778222 TAGTTTTAAAACTTATATAATATA
1 TAGTTTTAAAACTTATAT-ATATA
778246 TA
1 TA
778248 TAGTTTTCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 3 0.08
23 17 0.44
24 19 0.49
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (23 bp):
TAGTTTTAAAACTTATATATATA
Found at i:778263 original size:24 final size:22
Alignment explanation
Indices: 778176--778263 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 22
778166 TATACATACG
* * *
778176 TAGTTTCAAAATTATATATAGCA
1 TAGTTTTAAAAATATATATA-TA
* *
778199 TTGTTTTAAACATATATGATATA
1 TAGTTTTAAAAATATAT-ATATA
778222 TAGTTTTAAAACTTATATAATATATA
1 TAGTTTTAAAA---ATAT-ATATATA
778248 TAGTTTTCAAAAATAT
1 TAGTTTT-AAAAATAT
778264 GTTGTGTAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
23 23 0.44
24 7 0.13
26 16 0.31
27 6 0.12
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (22 bp):
TAGTTTTAAAAATATATATATA
Found at i:778328 original size:3 final size:3
Alignment explanation
Indices: 778320--778344 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
778310 GTTTTTATAT
778320 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
778345 GTTTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:779586 original size:13 final size:13
Alignment explanation
Indices: 779568--779611 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
779558 GTCATAAATC
779568 TATGACGCACATT
1 TATGACGCACATT
* *
779581 TATGACACGCATT
1 TATGACGCACATT
*
779594 TATGACGCTCATT
1 TATGACGCACATT
779607 TATGA
1 TATGA
779612 AGCTCATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:779616 original size:13 final size:13
Alignment explanation
Indices: 779577--779619 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
779567 CTATGACGCA
*
779577 CATTTATGACA-CG
1 CATTTATGA-AGCT
*
779590 CATTTATGACGCT
1 CATTTATGAAGCT
779603 CATTTATGAAGCT
1 CATTTATGAAGCT
779616 CATT
1 CATT
779620 GCGCGTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (13 bp):
CATTTATGAAGCT
Found at i:784404 original size:22 final size:22
Alignment explanation
Indices: 784373--784427 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
784363 CTCCCTTTGG
784373 ATCTGCAAAAGATAACCAATAC
1 ATCTGCAAAAGATAACCAATAC
*
784395 ATTTGCAAAAGATAACCAATAC
1 ATCTGCAAAAGATAACCAATAC
784417 ATCTGCAAAAG
1 ATCTGCAAAAG
784428 TGTTGTTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (22 bp):
ATCTGCAAAAGATAACCAATAC
Found at i:788193 original size:21 final size:21
Alignment explanation
Indices: 788143--788218 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
788133 GTCCGAGTTA
*
788143 CCCGCGACGGCCGTAATAGTG
1 CCCGCGACGGCCGTAATAGCG
** *
788164 TTCGTGACGGCCGTAATAGCG
1 CCCGCGACGGCCGTAATAGCG
*
788185 CCCGCGACGGCCGCAATAGCG
1 CCCGCGACGGCCGTAATAGCG
788206 CCCGCGACGGCCG
1 CCCGCGACGGCCG
788219 CAATCACGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.17, C:0.37, G:0.34, T:0.12
Consensus pattern (21 bp):
CCCGCGACGGCCGTAATAGCG
Found at i:796751 original size:14 final size:15
Alignment explanation
Indices: 796726--796754 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
796716 TTAACCTTTG
796726 TAAAACATCATAATA
1 TAAAACATCATAATA
796741 TAAAA-ATCATAATA
1 TAAAACATCATAATA
796755 CATTTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAACATCATAATA
Found at i:797007 original size:23 final size:23
Alignment explanation
Indices: 796939--797032 Score: 77
Period size: 23 Copynumber: 4.2 Consensus size: 23
796929 AAGTGCTACA
*
796939 TAGAAATGTCCCG-AGGACCACA
1 TAGAAATGTCCCGAAGGACCACG
* ****
796961 TAG--ATGTCCTGAAGGATTGGG
1 TAGAAATGTCCCGAAGGACCACG
*
796982 TAGAAATGTCCAGAAGGACCACG
1 TAGAAATGTCCCGAAGGACCACG
* **
797005 TAGAATTGTCCCGAAGGACTGCG
1 TAGAAATGTCCCGAAGGACCACG
797028 TAGAA
1 TAGAA
797033 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
20 7 0.13
21 7 0.13
22 3 0.06
23 37 0.69
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCACG
Found at i:797022 original size:46 final size:43
Alignment explanation
Indices: 796939--797032 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 43
796929 AAGTGCTACA
* * * *
796939 TAGAAATGTCCCGAGGACCACATAGATGTCCTGAAGGATTGGG
1 TAGAAATGTCCAGAGGACCACATAGATGTCCCGAAGGACTGCG
*
796982 TAGAAATGTCCAGAAGGACCACGTAGAATTGTCCCGAAGGACTGCG
1 TAGAAATGTCCAG-AGGACCACATAG-A-TGTCCCGAAGGACTGCG
797028 TAGAA
1 TAGAA
797033 CCCTCGACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 12 0.28
44 11 0.26
45 1 0.02
46 19 0.44
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (43 bp):
TAGAAATGTCCAGAGGACCACATAGATGTCCCGAAGGACTGCG
Found at i:799505 original size:23 final size:23
Alignment explanation
Indices: 799408--799517 Score: 114
Period size: 23 Copynumber: 4.8 Consensus size: 23
799398 GAGTCGAGGG
* *
799408 TTCTACGTGGTTCTTCGGGACAC
1 TTCTACGTGGTCCTTCGGGACAT
* *
799431 TTCTACATGGTCCTTTGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
* * *
799454 TTCTACGCGGTCGTTCGAGACAT
1 TTCTACGTGGTCCTTCGGGACAT
* *
799477 TTCTATGTGGTCCTTTGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
*
799500 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
799518 TGCATATTCT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
22 1 0.01
23 70 0.99
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAT
Found at i:799545 original size:24 final size:23
Alignment explanation
Indices: 799500--799554 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
799490 TTTGGGACAT
* **
799500 TTCTATGTGGCACTTCGGTGCATA
1 TTCTATATGGCACTTCAATGCA-A
*
799524 TTCTATATGGCACTTTAATGCAA
1 TTCTATATGGCACTTCAATGCAA
799547 TT-TATATG
1 TTCTATATG
799555 AGCAGTGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.22
23 3 0.11
24 18 0.67
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (23 bp):
TTCTATATGGCACTTCAATGCAA
Found at i:808561 original size:2 final size:2
Alignment explanation
Indices: 808556--808593 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
808546 AAAAACATAT
*
808556 CA CA CA CA CA CA CA CA CA CA CA CA CA AA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
808594 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:808575 original size:223 final size:227
Alignment explanation
Indices: 808187--808633 Score: 794
Period size: 223 Copynumber: 2.0 Consensus size: 227
808177 AAACGTGTTT
*
808187 TACATACGAGGGAGTAAGATGAGAAGAGAAATACAACTGAGATATAGAAAAGGAACGGCTCGCAG
1 TACATACGAGGGAGTAAGATGAGAAGAGAAATACAACTGAGATATAGAAAAGGAACGACTCGCAG
* *
808252 ACTGTATTTCAAATTAAACCATTGTAAAAATGAACAAGGGCTATAACCATGCATGTCAAACACCG
66 ACCGTATTTCAAATTAAACCATTGTAAAAATGAACAAGGGCTATAACCATGCATGTCAAACACCA
* * *
808317 TGCAAAACAAACATAT-CACACATACACACACACACACAC-ACA-A-ACATATATATATATAAAC
131 TGCAAAAAAAACATATACACACACACACACACACACACACAACACACACACATATATATATAAAC
808378 ACGTTGTTACACCTTTGTTTAAAATATATATA
196 ACGTTGTTACACCTTTGTTTAAAATATATATA
808410 TACATACGAGGGAGTAAGATGAGAAGAGAAATACAACTGAGATATAGAAAAGGAACGACTCGCAG
1 TACATACGAGGGAGTAAGATGAGAAGAGAAATACAACTGAGATATAGAAAAGGAACGACTCGCAG
808475 ACCGTATTTCAAATTAAACCATTGTAAAAATGAACAAGGGCTATAACCATGCATGTCAAACACCA
66 ACCGTATTTCAAATTAAACCATTGTAAAAATGAACAAGGGCTATAACCATGCATGTCAAACACCA
808540 TGCAAAAAAAACATATCACACACACACACACACACACACACAAACACACACACATATATATATAA
131 TGCAAAAAAAACATAT-ACACACACACACACACACACACAC-AACACACACACATATATATATAA
808605 ACACGTTGTTACACCTTTGTTTAAAATAT
194 ACACGTTGTTACACCTTTGTTTAAAATAT
808634 TAATATGTCC
Statistics
Matches: 212, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
223 142 0.67
225 22 0.10
227 3 0.01
228 1 0.00
229 44 0.21
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (227 bp):
TACATACGAGGGAGTAAGATGAGAAGAGAAATACAACTGAGATATAGAAAAGGAACGACTCGCAG
ACCGTATTTCAAATTAAACCATTGTAAAAATGAACAAGGGCTATAACCATGCATGTCAAACACCA
TGCAAAAAAAACATATACACACACACACACACACACACACAACACACACACATATATATATAAAC
ACGTTGTTACACCTTTGTTTAAAATATATATA
Found at i:819073 original size:13 final size:13
Alignment explanation
Indices: 819055--819082 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
819045 CATATATTTG
819055 ATATATTCTAAAT
1 ATATATTCTAAAT
819068 ATATATTCTAAAT
1 ATATATTCTAAAT
819081 AT
1 AT
819083 GTCAAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATTCTAAAT
Found at i:819537 original size:20 final size:20
Alignment explanation
Indices: 819500--819542 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
819490 TATATTGGGC
** *
819500 TATTGTCTATTGTTTATGGT
1 TATTGTCTATAATATATGGT
819520 TATTGTCTATAATATATGGT
1 TATTGTCTATAATATATGGT
819540 TAT
1 TAT
819543 GAAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (20 bp):
TATTGTCTATAATATATGGT
Found at i:819611 original size:44 final size:44
Alignment explanation
Indices: 819548--819702 Score: 256
Period size: 44 Copynumber: 3.5 Consensus size: 44
819538 GTTATGAAAT
* *
819548 AATGGCAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
* *
819592 AATGGTAAGTATATAGGTAAAATAAGCTTACGAGCTTATGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
* *
819636 AATGGTAAGTGTATTGGTAAAATAAGCTTTCGAGCTTATGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
819680 AATGGTAAGTATATTGGTAAAAT
1 AATGGTAAGTATATTGGTAAAAT
819703 TTTGCATATG
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 102 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (44 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTTCGAGCTTATGGATA
Found at i:820063 original size:11 final size:11
Alignment explanation
Indices: 820033--820067 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
820023 TAATGCTGAA
*
820033 AGTATTGTAGC
1 AGTACTGTAGC
820044 AGTTACTGTAGC
1 AG-TACTGTAGC
820056 AGTACTGTAGC
1 AGTACTGTAGC
820067 A
1 A
820068 CATCGATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (11 bp):
AGTACTGTAGC
Found at i:821935 original size:21 final size:22
Alignment explanation
Indices: 821891--821942 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
821881 GTATGAACAA
*
821891 TATCGATACCCTATGGATGAGG
1 TATCGATACCATATGGATGAGG
821913 TATCGATACCTATATGGA-G-GG
1 TATCGATACC-ATATGGATGAGG
821934 TATCGATAC
1 TATCGATAC
821943 ATGGGGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 11 0.39
22 11 0.39
23 6 0.21
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (22 bp):
TATCGATACCATATGGATGAGG
Found at i:822029 original size:22 final size:22
Alignment explanation
Indices: 821986--822029 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
821976 CCTGGATAGG
* *
821986 GTATCGGTACCCTAGTTGAGAA
1 GTATCGATACCCTAGCTGAGAA
822008 GTATCGATACCCTAAGCT-AGAA
1 GTATCGATACCCT-AGCTGAGAA
822030 AGTTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (22 bp):
GTATCGATACCCTAGCTGAGAA
Found at i:822805 original size:28 final size:28
Alignment explanation
Indices: 822765--822818 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
822755 AAGAGTCGGG
* *
822765 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGCGGTCCTTCGGGAAATATGT
*
822793 GTTCTATGCGGTCCTTCGGGAAATAT
1 GTTCTACGCGGTCCTTCGGGAAATAT
822819 TCTACGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (28 bp):
GTTCTACGCGGTCCTTCGGGAAATATGT
Found at i:823341 original size:2 final size:2
Alignment explanation
Indices: 823334--823367 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
823324 AGTTATTTTC
*
823334 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
823368 GTTATTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:824983 original size:29 final size:29
Alignment explanation
Indices: 824913--824986 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
824903 AAATTGGAGT
*
824913 AAAATT-AGAAAGAAAAGAAAAAAATAAGA
1 AAAATTCAGAAA-AGAAGAAAAAAATAAGA
824942 AAAATTCAGAAAAGAAGAAAAGAAA-AAGA
1 AAAATTCAGAAAAGAAGAAAA-AAATAAGA
*
824971 AGAAATTC-TAAAAGAA
1 A-AAATTCAGAAAAGAA
824987 AGCAAAGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.11
Consensus pattern (29 bp):
AAAATTCAGAAAAGAAGAAAAAAATAAGA
Found at i:827827 original size:2 final size:2
Alignment explanation
Indices: 827820--827855 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
827810 AGTTAATTTC
*
827820 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
827856 GTTATTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:829101 original size:22 final size:21
Alignment explanation
Indices: 829064--829105 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
829054 CCATCTCCAT
829064 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
829085 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
829106 TTTTGCAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:833066 original size:28 final size:28
Alignment explanation
Indices: 833034--833114 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
833024 AGAGTTGAGG
833034 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
*
833062 GTTCTACGTGGTCCTCCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* *
833090 GTTCTATGTGGTCCTTTGGGACATA
1 GTTCTACGTGGTCCTTCGGGACATA
833115 GTGGTCCTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.36
Consensus pattern (28 bp):
GTTCTACGTGGTCCTTCGGGACATATGT
Found at i:836029 original size:9 final size:9
Alignment explanation
Indices: 836011--836042 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
836001 TTGAACCCCC
836011 TTTTATTTTT
1 TTTTA-TTTT
836021 TTTTATTTT
1 TTTTATTTT
836030 TTTTATTTT
1 TTTTATTTT
836039 TTTT
1 TTTT
836043 TCTTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTATTTT
Found at i:836048 original size:22 final size:21
Alignment explanation
Indices: 836016--836062 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
836006 CCCCCTTTTA
*
836016 TTTTTTTTTATTTTTTTTATT
1 TTTTTTTTTATATTTTTTATT
836037 TTTTTTTCTTATATTTTTTATT
1 TTTTTTT-TTATATTTTTTATT
836059 TTTT
1 TTTT
836063 CAGGCAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTTTTTTATATTTTTTATT
Found at i:844271 original size:18 final size:18
Alignment explanation
Indices: 844248--844285 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
844238 ATAGTGCAAT
844248 ATAAAAA-ATGTAAATAAA
1 ATAAAAAGATG-AAATAAA
844266 ATAAAAAGATGAAATAAA
1 ATAAAAAGATGAAATAAA
844284 AT
1 AT
844286 CAATCAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
ATAAAAAGATGAAATAAA
Found at i:845567 original size:14 final size:14
Alignment explanation
Indices: 845548--845575 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
845538 CATAATAATA
845548 TTTAATTATTTCCT
1 TTTAATTATTTCCT
845562 TTTAATTATTTCCT
1 TTTAATTATTTCCT
845576 GTCGAGAAGA
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:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTATTTCCT
Found at i:860479 original size:25 final size:25
Alignment explanation
Indices: 860420--860481 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
860410 ATTTTGCCCA
*
860420 TGCCATTTTCCAAAAATTTCAATCT
1 TGCCATTTTTCAAAAATTTCAATCT
*
860445 TGTCATTTTTCAAAAATTTCAATCT
1 TGCCATTTTTCAAAAATTTCAATCT
860470 TGCCATTTTTCA
1 TGCCATTTTTCA
860482 TCCAATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (25 bp):
TGCCATTTTTCAAAAATTTCAATCT
Found at i:862060 original size:14 final size:14
Alignment explanation
Indices: 862041--862069 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
862031 ATATCACATA
862041 AATATATAATTAAT
1 AATATATAATTAAT
862055 AATATATAATTAAT
1 AATATATAATTAAT
862069 A
1 A
862070 CTAATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATAATTAAT
Found at i:863711 original size:14 final size:14
Alignment explanation
Indices: 863694--863725 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
863684 CCTTTTGTTT
863694 TCTTCCCCAAACTA
1 TCTTCCCCAAACTA
863708 TCTTCCCCAAACTA
1 TCTTCCCCAAACTA
863722 TCTT
1 TCTT
863726 ACTGCTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (14 bp):
TCTTCCCCAAACTA
Found at i:864844 original size:24 final size:25
Alignment explanation
Indices: 864816--864868 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
864806 TGATTTTATG
864816 TTAAGAGA-GTCAATAC-ATAAAATT
1 TTAAGAGATGTCAA-ACTATAAAATT
*
864840 TTAAGGGATGTCAAACTTATAAAATT
1 TTAAGAGATGTCAAAC-TATAAAATT
864866 TTA
1 TTA
864869 GATGGCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 5 0.20
26 11 0.44
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (25 bp):
TTAAGAGATGTCAAACTATAAAATT
Found at i:867038 original size:44 final size:44
Alignment explanation
Indices: 866988--867074 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
866978 TAATAAACAC
*
866988 CGCTAAAACTCAGGTTAT-TTAGTGG-AGTTTGAGTATACAAACGT
1 CGCTAAAACTCAGGTTATATT-GTGGTAGTTTAAG-ATACAAACGT
** *
867032 CGCTAAAGGTCAGGTTATATTGTGGTATTTTAAGATACAAACG
1 CGCTAAAACTCAGGTTATATTGTGGTAGTTTAAGATACAAACG
867075 CCGCAATAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 29 0.78
45 8 0.22
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (44 bp):
CGCTAAAACTCAGGTTATATTGTGGTAGTTTAAGATACAAACGT
Found at i:867704 original size:19 final size:18
Alignment explanation
Indices: 867670--867714 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
867660 TGTTGCTTCT
867670 CTCTCTCTTCTATCGCTA
1 CTCTCTCTTCTATCGCTA
* *
867688 CTCTCTGCTTCTCTCGCTG
1 CTCTCT-CTTCTATCGCTA
867707 CTCTCTCT
1 CTCTCTCT
867715 GCTTCTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.04, C:0.42, G:0.09, T:0.44
Consensus pattern (18 bp):
CTCTCTCTTCTATCGCTA
Found at i:867714 original size:21 final size:20
Alignment explanation
Indices: 867667--867720 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
867657 AAATGTTGCT
867667 TCTCTCTCT-CTTCTATCGC
1 TCTCTCTCTGCTTCTATCGC
* *
867686 T-ACTCTCTGCTTCTCTCGC
1 TCTCTCTCTGCTTCTATCGC
867705 TGCTCTCTCTGCTTCT
1 T-CTCTCTCTGCTTCT
867721 TTCATTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.21
19 11 0.38
21 12 0.41
ACGTcount: A:0.04, C:0.41, G:0.09, T:0.46
Consensus pattern (20 bp):
TCTCTCTCTGCTTCTATCGC
Found at i:868099 original size:30 final size:32
Alignment explanation
Indices: 868063--868122 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
868053 TTAAAATATG
*
868063 AAATTTTATA-CTA-TAAATATAACATAATGC
1 AAATTTTATATCCAGTAAATATAACATAATGC
*
868093 AAATTTTATATCCAGTAAATATACCATAAT
1 AAATTTTATATCCAGTAAATATAACATAAT
868123 TTTTGCAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 10 0.38
31 2 0.08
32 14 0.54
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (32 bp):
AAATTTTATATCCAGTAAATATAACATAATGC
Found at i:876017 original size:53 final size:53
Alignment explanation
Indices: 875936--876052 Score: 173
Period size: 53 Copynumber: 2.2 Consensus size: 53
875926 TTGTCAGAAG
* * * **
875936 GGTATCAATA-ACTACTGGGGTATTGGTACCCAAATTAACTTCGATGTTTGTA
1 GGTATCGATACACTACTGAGGTATCGGTACCCAAATTAACTTCGATGTTTACA
*
875988 GGTATCGATACACTACTGAGTTATCGGTACCCAAATTAACTTCGATGTTTACA
1 GGTATCGATACACTACTGAGGTATCGGTACCCAAATTAACTTCGATGTTTACA
876041 GGTATCGATACA
1 GGTATCGATACA
876053 TGCCTGATGG
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 9 0.16
53 49 0.84
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (53 bp):
GGTATCGATACACTACTGAGGTATCGGTACCCAAATTAACTTCGATGTTTACA
Found at i:880045 original size:21 final size:21
Alignment explanation
Indices: 880020--880064 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
880010 TATGCCACAT
880020 AAAATTGGGTAATTTTAGTAA
1 AAAATTGGGTAATTTTAGTAA
880041 AAAATTGGGTAATTTTAGTAA
1 AAAATTGGGTAATTTTAGTAA
880062 AAA
1 AAA
880065 CTTTTACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.36
Consensus pattern (21 bp):
AAAATTGGGTAATTTTAGTAA
Found at i:886936 original size:26 final size:22
Alignment explanation
Indices: 886888--886951 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 22
886878 TGAGTATTAG
* *
886888 TTTTCTCCTATTTGTATCATTTTCT
1 TTTTTTCCTATTT-TTTCA-TTT-T
886913 TTTCTTTCCTATTTTTTCACTTTT
1 TTT-TTTCCTATTTTTTCA-TTTT
886937 TTTTTT-CTATTTTTT
1 TTTTTTCCTATTTTTT
886952 GCATGTCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 4 0.11
25 10 0.29
26 9 0.26
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTCCTATTTTTTCATTTT
Found at i:889991 original size:17 final size:17
Alignment explanation
Indices: 889965--889998 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
889955 TTTTGTTTTT
889965 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
889983 AATTT-TTTAATATTTA
1 AATTTATTTAATATTTA
889999 TTTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:895578 original size:15 final size:15
Alignment explanation
Indices: 895558--895587 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
895548 CATATGAACC
895558 CATATTCAGGTCGTG
1 CATATTCAGGTCGTG
895573 CATATTCAGGTCGTG
1 CATATTCAGGTCGTG
895588 TGCCGCCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
CATATTCAGGTCGTG
Found at i:896513 original size:14 final size:14
Alignment explanation
Indices: 896480--896515 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
896470 ACCAAATAAC
896480 ATAA-AAAAAGAAA
1 ATAATAAAAAGAAA
896493 ATAAATAAAAAGAAA
1 AT-AATAAAAAGAAA
896508 ATAATAAA
1 ATAATAAA
896516 TAATAAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 8 0.38
15 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (14 bp):
ATAATAAAAAGAAA
Found at i:896513 original size:18 final size:17
Alignment explanation
Indices: 896473--896518 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
896463 CTGTTAGACC
896473 AAATAACATAAAAAAAGA
1 AAATAA-ATAAAAAAAGA
896491 AAATAAATAAAAAGAA-A
1 AAATAAATAAAAA-AAGA
896508 ATAATAAATAA
1 A-AATAAATAA
896519 TAAACCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (17 bp):
AAATAAATAAAAAAAGA
Found at i:896631 original size:37 final size:38
Alignment explanation
Indices: 896590--896816 Score: 341
Period size: 39 Copynumber: 5.9 Consensus size: 38
896580 CATATAAAAA
*
896590 TTTTCAAAAACTATATA-ATATATATATTTTCAAAATG
1 TTTTCAAAAACTATATATATATATATGTTTTCAAAATG
896627 TTTTCAAAAACTATATATTATATATATGTTTTCAAAATG
1 TTTTCAAAAACTATATA-TATATATATGTTTTCAAAATG
* * * *
896666 TTTCCAAAAACTATATGT-TATATATATTTTCAAAATA
1 TTTTCAAAAACTATATATATATATATGTTTTCAAAATG
*
896703 TTTTCAAAAACTATATATTATATATATGTTTTCAAAGTG
1 TTTTCAAAAACTATATA-TATATATATGTTTTCAAAATG
*
896742 TTTTCAAAAACTATATATTATATATATGTTTTCAAAGTG
1 TTTTCAAAAACTATATA-TATATATATGTTTTCAAAATG
*
896781 TTTTCAAAAACTATATTTATATATATGTTTTCAAAA
1 TTTTCAAAAACTATATATATATATATGTTTTCAAAA
896817 ACTATATGTT
Statistics
Matches: 174, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
37 49 0.28
38 20 0.11
39 105 0.60
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (38 bp):
TTTTCAAAAACTATATATATATATATGTTTTCAAAATG
Found at i:896833 original size:27 final size:27
Alignment explanation
Indices: 896764--896841 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
896754 ATATATTATA
*
896764 TATATGTTTTCAAAGTGTTTTCAAAAAC
1 TATATGTTTTCATA-TGTTTTCAAAAAC
896792 TATAT-TTATAT-ATATGTTTTCAAAAAC
1 TATATGTT-T-TCATATGTTTTCAAAAAC
896819 TATATGTTTTCATA--TTTTCAAAA
1 TATATGTTTTCATATGTTTTCAAAA
896842 TGTCTTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
25 9 0.20
26 1 0.02
27 24 0.53
28 10 0.22
29 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.47
Consensus pattern (27 bp):
TATATGTTTTCATATGTTTTCAAAAAC
Found at i:896931 original size:28 final size:26
Alignment explanation
Indices: 896900--897002 Score: 115
Period size: 28 Copynumber: 3.9 Consensus size: 26
896890 ATATATCATA
*
896900 TATATATTTTCAAAATGTTTTCAAAAAC
1 TATATA-TTT-AATATGTTTTCAAAAAC
896928 TATATATTATATATATGTTTTCAAAAAC
1 TATATATT-TA-ATATGTTTTCAAAAAC
896956 TATATA--T-ATATGTTTTCAAAAAC
1 TATATATTTAATATGTTTTCAAAAAC
*
896979 TATATA-TTATATATATTTTCAAAA
1 TATATATTTA-ATATGTTTTCAAAA
897003 TGTTTTCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
23 22 0.32
24 1 0.01
25 1 0.01
26 13 0.19
27 3 0.04
28 28 0.41
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (26 bp):
TATATATTTAATATGTTTTCAAAAAC
Found at i:896939 original size:37 final size:37
Alignment explanation
Indices: 896805--897031 Score: 200
Period size: 35 Copynumber: 5.8 Consensus size: 37
896795 ATTTATATAT
*
896805 ATGTTTTCAAAAACTATATGTT-T-TCATATTTTCAAA
1 ATGTTTTCAAAAACTATATATTATAT-ATATTTTCAAA
896841 ATGTCTTT--AAAACTATATATCATATATATATTTTCAAA
1 ATGT-TTTCAAAAACTATATAT--TATATATATTTTCAAA
896879 ATG---T-AAAAACTATATATCATATATATATTTTCAAA
1 ATGTTTTCAAAAACTATATAT--TATATATATTTTCAAA
896914 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAAACTATATATA
1 ATGTTTTCAAAAACTATATATTATATATA--TTTT------C---A-A-A
896964 TATGTTTTCAAAAACTATATATTATATATATTTTCAAA
1 -ATGTTTTCAAAAACTATATATTATATATATTTTCAAA
*
897002 ATGTTTTCAAAAACTATATGTTATATATAT
1 ATGTTTTCAAAAACTATATATTATATATAT
897032 ATTTTTAAAA
Statistics
Matches: 165, Mismatches: 2, Indels: 47
0.77 0.01 0.22
Matches are distributed among these distances:
34 1 0.01
35 44 0.27
36 4 0.02
37 41 0.25
38 17 0.10
39 19 0.12
40 1 0.01
43 1 0.01
45 1 0.01
48 1 0.01
49 5 0.03
50 1 0.01
51 29 0.18
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (37 bp):
ATGTTTTCAAAAACTATATATTATATATATTTTCAAA
Found at i:896965 original size:23 final size:23
Alignment explanation
Indices: 896935--896990 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
896925 AACTATATAT
896935 TATATATATGTTTTCAAAAACTA
1 TATATATATGTTTTCAAAAACTA
896958 TATATATATGTTTTCAAAAACTA
1 TATATATATGTTTTCAAAAACTA
896981 TATATTATAT
1 TATA-TATAT
896991 ATATTTTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (23 bp):
TATATATATGTTTTCAAAAACTA
Found at i:897001 original size:88 final size:90
Alignment explanation
Indices: 896883--897055 Score: 280
Period size: 88 Copynumber: 1.9 Consensus size: 90
896873 TTCAAAATGT
896883 AAAAACTATATATCATATATATATTTTCAAAATGTTTTCAAAAACTATATATTATATATAT-GTT
1 AAAAACTATATAT-ATATATATATTTTCAAAATGTTTTCAAAAACTATATATTATATATATAGTT
*
896947 TTCAAAAAC-TATATATATATGTTTTC
65 TTAAAAAACATAT-TATATATGTTTTC
* *
896973 AAAAACTATATAT-TATATATATTTTCAAAATGTTTTCAAAAACTATATGTTATATATATATTTT
1 AAAAACTATATATATATATATATTTTCAAAATGTTTTCAAAAACTATATATTATATATATAGTTT
897037 TAAAAAACATATTATATAT
66 TAAAAAACATATTATATAT
897056 TAAATAGAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
88 45 0.58
89 17 0.22
90 16 0.21
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (90 bp):
AAAAACTATATATATATATATATTTTCAAAATGTTTTCAAAAACTATATATTATATATATAGTTT
TAAAAAACATATTATATATGTTTTC
Found at i:910569 original size:25 final size:25
Alignment explanation
Indices: 910529--910607 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 25
910519 CAAATAACAT
*
910529 AAAAAGAAAGAAAATAAATAAAAATA
1 AAAAAGAAA-ATAATAAATAAAAATA
910555 AAAAAGAAAATAAT-AATAATAAATA
1 AAAAAGAAAATAATAAATAA-AAATA
** *
910580 ATAAACCATAATAATACAATAAATAATA
1 A-AAAAGAAAATAATA-AATAAA-AATA
910608 TATATAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 5 0.11
25 10 0.23
26 19 0.43
27 1 0.02
28 9 0.20
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAAGAAAATAATAAATAAAAATA
Found at i:910665 original size:32 final size:34
Alignment explanation
Indices: 910629--910711 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 34
910619 AGTGTACTAT
*
910629 AATATATAATATACATAT-AAA-TATTTTCAAAA
1 AATATATAATATATATATCAAATTATTTTCAAAA
910661 AATATATAATATATAT-TCAAATTATTTTCAAAA
1 AATATATAATATATATATCAAATTATTTTCAAAA
* *
910694 ACTATATATTATATATAT
1 AATATATAATATATATAT
910712 GTTTTCAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 1 0.02
32 18 0.40
33 25 0.56
34 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (34 bp):
AATATATAATATATATATCAAATTATTTTCAAAA
Found at i:910730 original size:39 final size:39
Alignment explanation
Indices: 910676--911067 Score: 541
Period size: 39 Copynumber: 10.2 Consensus size: 39
910666 ATAATATATA
* *
910676 TTCAAATTATTTTCAAAAACTATATATTATATATATGTT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
*
910715 TTCAAAATGTTTTCAAAAACTATATGTTATATATA--TT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
* * *
910752 TTCAAAATATTATCAAAAACTACATATTATATATATATGTT
1 TTCAAAATGTTTTCAAAAACTATATA-T-TATATATATGTT
** * **
910793 TTCAAAA-ACTAT-ATATTA-TATATATATATATATATGTT
1 TTCAAAATGTTTTCA-AAAACTATATAT-TATATATATGTT
*
910831 TTCAAAGTGTTTTCAAAAACTATATATTATATATATGTT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
* * *
910870 TTCAAAGTGTTTTCAAAAACTCTATATT-T-TATATATT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
910907 TTCAAAATGTTTTCAAAAACTATATATTATATATA--TT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
*
910944 TTCAAAATGTTTTCAAAAACTATGTATTATATATATGTT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
910983 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
911022 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
1 TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
911061 TTCAAAA
1 TTCAAAA
911068 ACTATATATT
Statistics
Matches: 318, Mismatches: 23, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
37 93 0.29
38 23 0.07
39 179 0.56
40 14 0.04
41 9 0.03
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (39 bp):
TTCAAAATGTTTTCAAAAACTATATATTATATATATGTT
Found at i:910772 original size:76 final size:76
Alignment explanation
Indices: 910647--911142 Score: 553
Period size: 76 Copynumber: 6.8 Consensus size: 76
910637 ATATACATAT
* * * *
910647 AAATATTTTCAAAAA--ATATA-TA-ATATATATTCAAATTATTTTCAAAAACTATATATTATAT
1 AAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATTATAT
910708 ATATGTTTTCA
66 ATATGTTTTCA
* * * *
910719 AAATGTTTTCAAAAACTATATGTTATATATATTTTCAAAATATTATCAAAAACTACATATTATAT
1 AAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATA-T-TAT
910784 ATATATGTTTTCA
64 ATATATGTTTTCA
** * * * * *
910797 AAAACTATAT-ATTATA-TATATATATATATATGTTTTCAAAGTGTTTTCAAAAACTATATATTA
1 AAATGT-TTTCA-AAAACTATATAT-TATATATATTTTCAAAATGTTTTCAAAAACTATATATTA
910860 TATATATGTTTTCA
63 TATATATGTTTTCA
* * *
910874 AAGTGTTTTCAAAAACTCTATATTTTATATATTTTCAAAATGTTTTCAAAAACTATATATTATAT
1 AAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATTATAT
910939 ATA--TTTTCA
66 ATATGTTTTCA
*
910948 AAATGTTTTCAAAAACTATGTATTATATATATGTTTTCAAAATGTTTTCAAAAACTATATATTAT
1 AAATGTTTTCAAAAACTATATATTATATATA--TTTTCAAAATGTTTTCAAAAACTATATATTAT
911013 ATATATGTTTTCA
64 ATATATGTTTTCA
911026 AAATGTTTTCAAAAACTATATA-T-TATATA---T----ATGTTTTCAAAAACTATATATTATAT
1 AAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATTATAT
911082 A-------T--
66 ATATGTTTTCA
*
911084 --ATGTTTTCAAAAACTATATATTATATATATTTTCTAAATGTTTTCAAAAACTATATATT
1 AAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATT
911143 TTTTTAATTT
Statistics
Matches: 368, Mismatches: 32, Indels: 55
0.81 0.07 0.12
Matches are distributed among these distances:
56 20 0.05
57 1 0.00
58 6 0.02
60 1 0.00
61 1 0.00
65 22 0.06
67 27 0.07
71 1 0.00
72 14 0.04
74 37 0.10
75 2 0.01
76 118 0.32
77 28 0.08
78 55 0.15
79 35 0.10
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (76 bp):
AAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATTATAT
ATATGTTTTCA
Found at i:910789 original size:28 final size:28
Alignment explanation
Indices: 910758--910819 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 28
910748 TATTTTCAAA
910758 ATATTATCAAAAACTACATATTATATAT
1 ATATTATCAAAAACTACATATTATATAT
* *
910786 ATATGTTTTCAAAAACTATATATTATATAT
1 ATA--TTATCAAAAACTACATATTATATAT
910816 ATAT
1 ATAT
910820 ATATATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.13
30 26 0.87
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (28 bp):
ATATTATCAAAAACTACATATTATATAT
Found at i:911020 original size:28 final size:28
Alignment explanation
Indices: 910989--911113 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 28
910979 TGTTTTCAAA
910989 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
* * *
911017 ATGTTTTCAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAA-----AC-TATA-TAT-TA-TATAT
*
911054 ATATGTTTTCAAAAACTATATATTATATAT
1 ATGT--TTTCAAAAACTATATATTATATAT
911084 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATATTATATAT
911112 AT
1 AT
911114 TTTCTAAATG
Statistics
Matches: 78, Mismatches: 8, Indels: 22
0.72 0.07 0.20
Matches are distributed among these distances:
28 38 0.49
30 8 0.10
31 2 0.03
32 3 0.04
33 3 0.04
34 3 0.04
35 3 0.04
36 2 0.03
37 8 0.10
39 8 0.10
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (28 bp):
ATGTTTTCAAAAACTATATATTATATAT
Found at i:911046 original size:67 final size:65
Alignment explanation
Indices: 910950--911142 Score: 219
Period size: 67 Copynumber: 2.9 Consensus size: 65
910940 TATTTTCAAA
* * *
910950 ATGTTTTCAAAAACTATGTATTATATATATGTTTTCAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTA--TATAAAATATATATTTTCAAAATGTTTTCAAAAACTATATATTATAT
911015 AT
64 AT
** * * *
911017 ATGTTTTCAAAATGT-TTTCAAAAACTATATATTAT-ATATATGTTTTCAAAAACTATATATTAT
1 ATGTTTTCAAAAACTATAT--AAAA-TATATATTTTCA-AAATGTTTTCAAAAACTATATATTAT
911080 ATAT
62 ATAT
** *
911084 ATGTTTTCAAAAACTATATATTATATATATTTTCTAAATGTTTTCAAAAACTATATATT
1 ATGTTTTCAAAAACTATATAAAATATATATTTTCAAAATGTTTTCAAAAACTATATATT
911143 TTTTTAATTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
64 2 0.02
65 32 0.31
66 5 0.05
67 63 0.61
68 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (65 bp):
ATGTTTTCAAAAACTATATAAAATATATATTTTCAAAATGTTTTCAAAAACTATATATTATATAT
Found at i:911083 original size:37 final size:37
Alignment explanation
Indices: 911070--911142 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
911060 TTTCAAAAAC
*
911070 TATATATTATATATATGTTTTCAAAAACTATATATTA
1 TATATATTATATAAATGTTTTCAAAAACTATATATTA
* *
911107 TATATATTTTCTAAATGTTTTCAAAAACTATATATT
1 TATATATTATATAAATGTTTTCAAAAACTATATATT
911143 TTTTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (37 bp):
TATATATTATATAAATGTTTTCAAAAACTATATATTA
Found at i:913617 original size:17 final size:16
Alignment explanation
Indices: 913595--913664 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
913585 CAATTAAGAG
913595 CTAGTTTGATTAATGAA
1 CTAGTTT-ATTAATGAA
913612 CTAGTTTATTAATGAA
1 CTAGTTTATTAATGAA
* *
913628 CTACTTTAATCAATGAA
1 CTAGTTT-ATTAATGAA
*
913645 CTAACTTTATGTAATGAA
1 CT-AGTTTAT-TAATGAA
913663 CT
1 CT
913665 TGCAGACATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
16 15 0.32
17 19 0.40
18 13 0.28
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (16 bp):
CTAGTTTATTAATGAA
Found at i:913660 original size:18 final size:16
Alignment explanation
Indices: 913603--913664 Score: 79
Period size: 16 Copynumber: 3.7 Consensus size: 16
913593 AGCTAGTTTG
*
913603 ATTAATGAACTAGTTT
1 ATTAATGAACTACTTT
913619 ATTAATGAACTACTTT
1 ATTAATGAACTACTTT
*
913635 AATCAATGAACTAACTTT
1 -ATTAATGAACT-ACTTT
913653 ATGTAATGAACT
1 AT-TAATGAACT
913665 TGCAGACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
16 15 0.38
17 12 0.30
18 13 0.32
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTAATGAACTACTTT
Found at i:923031 original size:24 final size:23
Alignment explanation
Indices: 922996--923042 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
922986 AAATAATTTC
*
922996 TGAAAAAAGAAAATAAAAATAAG
1 TGAAAAAAGAAAACAAAAATAAG
*
923019 TGAAAATATGAAAACAAAAATAAG
1 TGAAAA-AAGAAAACAAAAATAAG
923043 ATGTTTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (23 bp):
TGAAAAAAGAAAACAAAAATAAG
Found at i:924919 original size:19 final size:18
Alignment explanation
Indices: 924886--924921 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
924876 GAATTTATGC
924886 TTATTTTTTTAAATATTA
1 TTATTTTTTTAAATATTA
*
924904 TTATTGTTTTTTAATATT
1 TTATT-TTTTTAAATATT
924922 TTTTAGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTTTTTTAAATATTA
Found at i:926793 original size:3 final size:3
Alignment explanation
Indices: 926785--926841 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
926775 GTAAAATATC
* *
926785 ATT ATT ATT A-T ATT AATT ATT ATT AGT ATT ATT ATT AGT ATT AGTT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
926831 ATT ATT ATT AT
1 ATT ATT ATT AT
926842 AACTAAATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:926805 original size:12 final size:13
Alignment explanation
Indices: 926788--926840 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
926778 AAATATCATT
926788 ATTATTA-TATTA
1 ATTATTATTATTA
*
926800 ATTATTATTAGTATT
1 ATTATTATTA-T-TA
*
926815 ATTATTAGTATTA
1 ATTATTATTATTA
*
926828 GTTATTATTATTA
1 ATTATTATTATTA
926841 TAACTAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
14 2 0.06
15 10 0.30
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:927728 original size:3 final size:3
Alignment explanation
Indices: 927720--927791 Score: 83
Period size: 3 Copynumber: 23.7 Consensus size: 3
927710 GAGTGTAAAA
* *
927720 TAT TAT TAT TA- TAT TAAT TAT TAT TAG TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
927765 TAG TAT TAAT TAT TAT TAT TAT AAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TA
927792 AATGTTAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.03
3 50 0.86
4 6 0.10
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:928698 original size:18 final size:19
Alignment explanation
Indices: 928675--928712 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
928665 TACCCGGGTG
928675 TAATTATTATTATA-TTAA
1 TAATTATTATTATAGTTAA
928693 TAATTATTATTATAGTTAA
1 TAATTATTATTATAGTTAA
928712 T
1 T
928713 TGTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TAATTATTATTATAGTTAA
Found at i:929596 original size:3 final size:3
Alignment explanation
Indices: 929588--929658 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
929578 GTAAAATATC
* * *
929588 ATT ATT ATT A-T ATT AATT GTT ATT AGT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
929633 AGT ATT AATT ATT ATT ATT ATA ATT A
1 ATT ATT -ATT ATT ATT ATT ATT ATT A
929659 AATGTTAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
2 2 0.04
3 47 0.85
4 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:930554 original size:18 final size:19
Alignment explanation
Indices: 930531--930566 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
930521 GGTGTAAAAT
930531 ATTATTATTATA-TTAATA
1 ATTATTATTATAGTTAATA
930549 ATTATTATTATAGTTAAT
1 ATTATTATTATAGTTAAT
930567 TGTTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTATTATTATAGTTAATA
Found at i:931460 original size:3 final size:3
Alignment explanation
Indices: 931452--931522 Score: 81
Period size: 3 Copynumber: 23.3 Consensus size: 3
931442 GTAAAATATC
* * *
931452 ATT ATT ATT -CT ATT AATT ATT ATT ATT ATT GTT ATT ATT AGT ATTT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
931498 ATT ATT ATT ATT ATT ATT ATA ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
931523 AATGTTAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 51 0.89
4 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:932560 original size:958 final size:945
Alignment explanation
Indices: 928784--933184 Score: 3968
Period size: 958 Copynumber: 4.7 Consensus size: 945
928774 ACCCAACTTG
*
928784 AAGCCCAAGACAGTTACAAGGTCAACCCAGACGAAGCCAACAAGCCCAATAACCCAGGGTATGGA
1 AAGCCCAAGATAGTTACAAGGTCAACCCA-AC-AAGCCAA-AAGCCCAA-AA-CCAGGGTAT-GA
*
928849 -CCATCAGACCCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAACC
60 CCCATCAGACTCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAACC
* * * *
928913 CTAAACACATTAGGGTTTCTAGTGATAATTCTCAGCACCACCTTCAACACCAGCTGTTAGATCTG
125 CTAAACACATTA-AGTTTCTGGTGATAATTCTCAGCACCACCTCCAACACCAGCTATTAGATCTG
* * * * * * *
928978 GACCCAACCAACGGTCTAGATCGCCCCAATGATAGGGTTTTCACCCTAATCCAGTG-CTGCTCC-
189 GACCCAACCAACGATCCAGATCGCCCCGATGATAAGGTTTTCACCCTAATCTAGCGAC-ACTCCT
* * * *
929041 ATCTCATCCACTGATATAGACCCAAATAAATGAT-TCAGATTAGTGACTATTTAGGGTTACTATA
253 ATCTCGTCCACTGATAT-GACCCAAATCAATGATCT-AGATTAGTGA-TATTTAGGGTT-GTAAA
* * * * *
929105 ACCCTAAACCTAGACAATT-TCTACCACTGCCACTGCATGCTGTTGTTGTCGCCTCCAACTGCCT
314 ACCCTAAACCTAGATAATTAT-TACCACCGCCACTGCATGCTGTTGCTGTCGCCTCCGACTGTCT
* ** ** * * * **
929169 CTAATGCCACCATCATCCTACAGTGATAGGGGATCAAT-GTCAACAATAAAGCTAAGACACATAT
378 CTGACACTGCCATCATCCTACAGTGACAGGGGATC-ATCATCAACAGTAAAGAAAAGACACATAT
* * *
929233 CAGTCT-------AA--AAAAAAATAGAAAACAAATTCACAGATATCCCAAGGATATATACCATA
442 CAATCTAACAACAAATCAAAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACCATA
* *
929289 TCAAAATAACCAGAATAGGGCACTCATACCCTATGTTTAGGGAACCTAAGTCATCAAATCAACCA
507 TCAAAACAACCATAATAGGGCACTCATACCCTAT-TTTAGGGAACCTAAGTCATCAAATCAACCA
* * * * *
929354 ACTTACAGAGGGGAGGGGGTTTCTTT-AAAA-AGATAGAGACTTCATATAAACACACAGAGAGTG
571 ACATACAGAGGGGAGGGGGTTTCTTTAAAAATAGAGAGAGATTTCAGAGAAACACACAGAGAGTG
* * *
929417 CCCAGAAA-TAAAAAA-AGAGAAAATCCAAAATATAAATAAAATAAATTATGAAAACATCTTCAA
636 CCCAGAAAGAAAAAAACAGAGAAAATCCAAAATGTAAATAAAATAAATTACGAAAACATCTTCAA
* * * *
929480 TATCGTTTGGCTCATCCTGATCCTCATTTCTCTAAGTAGCATTTACCAACTCTGGTTGCCTCACT
701 TATCGTTTGGCTCATCCAGATCATCATTTCTCTAAGTAACATTTACCAACTCTGGTTACCTCACT
* * * * ** *
929545 ATAGATATTGTAAGCACCAATTTTTGCCCGAGTGTAAAATATCATTATTATTATATTAATTGTTA
766 ATAGATATTGTAAGCACCCATTTTTGACCAAGGGTAAAATATCATTATTATTATATTAATAATAA
* * * * ***
929610 TTAGTATTA-TTATTGTTA-TTATTAGT-ATTAATTATTATTATTATAATTAAATGTTAATTTAC
831 TTATTA-TAGTTATTATTAGAT-TTA-TCATT-ATTATTACTATTATAATTAAATCCCAATTTAC
***** * * ** * *
929672 ATTTTGTGCAGGCCCCAACCTTCAGACCCAACCCCATTACAAAACATGAAACCCAAC
892 AAAACATGCAGACACCAACCTTCAGACCCAACCAAATTACAAAGCATCAAA-CC--C
* * *
929729 TTGAAGCACATGACAGTTACAAGGTCAACCCATACGAAGCCCAAAAAGCCCAACAACCTAGGGTA
1 ---AAGCCCAAGATAGTTACAAGGTCAACCCA-AC-AAG-CC-AAAAGCCCAA-AACC-AGGGTA
* * * * * * *
929794 TGACCCATCATACCCGACCCAGT------------GCTCGTATCCGACCCGACCTAGAACCT-AT
57 TGACCCATCAGACTCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAA
** ** * * ** * * * *
929846 ACCCTAAACACATTCGGGGTCTGATGATAACTCTCAGTGCCACCTCCAACATCAACTGTTGGATC
122 ACCCTAAACACATTAAGTTTCTGGTGATAATTCTCAGCACCACCTCCAACACCAGCTATTAGATC
* * * * * *
929911 TGGACCCAATCAACGGTCCATATCGCTCCGATGATAAGGTTTTCACCCTAATCCAGCGACGCTCC
187 TGGACCCAACCAACGATCCAGATCGCCCCGATGATAAGGTTTTCACCCTAATCTAGCGACACTCC
* * * **
929976 -ATCTCGTCCATTGATATGCACCCAAAT-AATGATCCAGGTTAGTGGCCATTTAGGGTTGTAAAA
252 TATCTCGTCCACTGATATG-ACCCAAATCAATGATCTAGATTAGT-GATATTTAGGGTTGT-AAA
* * * ** * * ** * * * *
930039 ACCCTAAACCTAGACAATTATTGCCGCAACCATTGCATGCTATTGCTACCACCTCTGACCGTATC
314 ACCCTAAACCTAGATAATTATTACCACCGCCACTGCATGCTGTTGCTGTCGCCTCCGACTGTCTC
* ** * * * * * *
930104 TGACATTGCCATCATTTTGCAATAAAAAGGGATCAACATCAACAGTAAAGAAAAGACACATATCA
379 TGACACTGCCATCATCCTACAGTGACAGGGGATCATCATCAACAGTAAAGAAAAGACACATATCA
* * * * *
930169 ATCTAACAACAAATCAAAAAAATAGAAAAGAAATTCACATATATTCCAAGGGTATCTACCATATC
444 ATCTAACAACAAATCAAAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACCATATC
* * * *
930234 AAAACAACCAGAATAGGGTACTCATACCCTATGTTTAGGGAACCTAAGTCATCAAATCAGCCATC
509 AAAACAACCATAATAGGGCACTCATACCCTAT-TTTAGGGAACCTAAGTCATCAAATCAACCAAC
* *
930299 ATACAGAGGGGAGGGGGTTTCTTTAAAAATAGAGAGTGATTTCAGAGAAACACA-GGAAGAGTGC
573 ATACAGAGGGGAGGGGGTTTCTTTAAAAATAGAGAGAGATTTCAGAGAAACACACAG-AGAGTGC
* * * * * *
930363 CCAAAAAGAAAAAAA-AAAGAAAATCCTAAATAG-AAATAGAATAAATTATGAAAACAACTTCAA
637 CCAGAAAGAAAAAAACAGAGAAAATCCAAAAT-GTAAATAAAATAAATTACGAAAACATCTTCAA
* * ** * ** *
930426 TATCATTTTGACTCATCGTGATCCTCATTTCTCCGAGTAACATTTACCAACTCTGGTTGCCTCAC
701 TATC-GTTTGGCTCATCCAGATCATCATTTCTCTAAGTAACATTTACCAACTCTGGTTACCTCAC
* *
930491 TATAGATATTGTAAGCACTCATTTTT-ACC-CGGTGT-AAA-AT-ATTATTATTATATTAATAAT
765 TATAGATATTGTAAGCACCCATTTTTGACCAAGG-GTAAAATATCATTATTATTATATTAATAAT
* *
930551 TATTATTATAGTTA--ATT-G---T-T-A--A-T-TTAC-------ATT---T-----TGT----
829 AATTATTATAGTTATTATTAGATTTATCATTATTATTACTATTATAATTAAATCCCAATTTACAA
* * * * * * *
930585 -GC-TG--G-C-CCTAACCTTCAGATCCATCCCAATTACAAAACATGGAACCCAAC
894 AACATGCAGACACC-AACCTTCAGACCCAACCAAATTACAAAGCAT-CAAACC--C
*
930635 TTGAAGCCCAAGAAAGTTACAAGGTCAACCCAGACAAAGCCAACAAGCCCAACAACCCAGGGTAT
1 ---AAGCCCAAGATAGTTACAAGGTCAACCCA-AC-AAGCCAA-AAGCCCAA-AA-CCAGGGTAT
*
930700 GACCCATCAGACTCGACCCAGTACAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAA
58 GACCCATCAGACTCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAA
* * *
930765 CCCTAAACACATTAAAGTGTCTGGTGATAATTCTCAACACCACCTCCAACACCAGCTGTTAGATC
123 CCCTAAACACATT-AAGTTTCTGGTGATAATTCTCAGCACCACCTCCAACACCAGCTATTAGATC
* * * * *
930830 TGGACCCAACCAATGGTCCAGATCGCCCCGATGAT-AGGATTTTCACCCTGAATCCAGCGCCGCT
187 TGGACCCAACCAACGATCCAGATCGCCCCGATGATAAGG-TTTTCACCCT-AATCTAGCGACACT
*
930894 CC-ATCTCATCCACTGATATAGACCCAAATCAATG-TCTAGATTAGTGACTATTTAGGGTTGTTA
250 CCTATCTCGTCCACTGATAT-GACCCAAATCAATGATCTAGATTAGTGA-TATTTAGGGTTG-TA
* * * *
930957 CAACCCTAAACCTAGATAATT-TCTACCACCAG-CACTGCATGCTATTGTTGTCGCCTCCAACTG
312 AAACCCTAAACCTAGATAATTAT-TACCACC-GCCACTGCATGCTGTTGCTGTCGCCTCCGACTG
* * * * * * *
931020 CCTCTGACGCCGCCATCATCCTACAATGATAGGGGATCAGT-GTCAACAATAAAGAAAAGACACA
375 TCTCTGACACTGCCATCATCCTACAGTGACAGGGGATCA-TCATCAACAGTAAAGAAAAGACACA
* * * * *
931084 TATCACTCTAACAACAAAACAAAAAAATAGAAAACAAATTCATAGATATCCCAAGGATATATACC
439 TATCAATCTAACAACAAATCAAAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACC
*
931149 ATATCAAAATAACCATAATAGGGCACTCATACCCTATGTTTAGGGAACCTAAGTCATCAAATCAA
504 ATATCAAAACAACCATAATAGGGCACTCATACCCTAT-TTTAGGGAACCTAAGTCATCAAATCAA
**
931214 CCAACATACAGAGGGGAGGGGGTTTCTTTAAAAATA-A-AGAGATTTCATTGAAACACACAGAGA
568 CCAACATACAGAGGGGAGGGGGTTTCTTTAAAAATAGAGAGAGATTTCAGAGAAACACACAGAGA
931277 GTG-CCAGAAAGAAAAAAACAGAGAAAATCCAAAATGTAAATAAAATAAATTACGAAAACATCTT
633 GTGCCCAGAAAGAAAAAAACAGAGAAAATCCAAAATGTAAATAAAATAAATTACGAAAACATCTT
* * * *
931341 CAATATCGTTTGGCTCATCCTGATCATTATTTCTCTAAGTAGCATTTACCAACTCTGGTTGCCTC
698 CAATATCGTTTGGCTCATCCAGATCATCATTTCTCTAAGTAACATTTACCAACTCTGGTTACCTC
* * * * *
931406 ACTATAGATATTGTAAGCACCTATTTTTGCCCAAGTGTAAAATATCATTATTATTCTATTAATTA
763 ACTATAGATATTGTAAGCACCCATTTTTGACCAAGGGTAAAATATCATTATTATTATATTAATAA
* * * * ***
931471 TTATTATTATTGTTATTATTAGTATTTATTATTATTATTATTATTATAATTAAATGTTAATTTAC
828 TAATTATTATAGTTATTATTAG-ATTTATCATTATTATTACTATTATAATTAAATCCCAATTTAC
***** * ** *
931536 ATTTTGTGCAGGCACCAACCTTCAGACCCAACCCCATTACAAAGCATGAAACCC
892 AAAACATGCAGACACCAACCTTCAGACCCAACCAAATTACAAAGCATCAAACCC
931590 AATTTGAAGCCCAAGATAGTTACAAGGTCAACCCATACGAAGCCCAAAAAGCCCAATAACCTAGG
1 ------AAGCCCAAGATAGTTACAAGGTCAACCCA-AC-AAG-CC-AAAAGCCCAA-AACC-AGG
* ** ** *
931655 GTATGACCCATCATAC-CTGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCCAACATATAA-C
54 GTATGACCCATCAGACTC-GACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACC
* * * ** *
931718 TATAACCCTAAACACATTCGAGTTTCTGGTGATAACTCTCAGTGCCACCTCCAACATCAGCTATT
118 TAAAACCCTAAACACATT-AAGTTTCTGGTGATAATTCTCAGCACCACCTCCAACACCAGCTATT
* *
931783 GGATCTGGACCCAATCAACGATCCAGATCGCCCCGATGATAAGGTTTTCACCCTAATCTAGCGAC
182 AGATCTGGACCCAACCAACGATCCAGATCGCCCCGATGATAAGGTTTTCACCCTAATCTAGCGAC
* *
931848 AC-CCTATCTCGTCCACTGATATGCACCCAAATCAATGATCTAGGTTAATGATAATTTAGGGTTG
247 ACTCCTATCTCGTCCACTGATATG-ACCCAAATCAATGATCTAGATTAGTGAT-ATTTAGGGTTG
** * * * ** * * *
931912 TAAAAACAATAAACCTAGATAATTATTACCGCCGCCATTGCATGCTGTTACTACCACCTCTGACC
310 T-AAAACCCTAAACCTAGATAATTATTACCACCGCCACTGCATGCTGTTGCTGTCGCCTCCGACT
* * ** * *
931977 GTCTCTGACATTGCCATTATTTTACAGTGACAAGGGATCATCATCAACTGTAAAGAAAAGACACA
374 GTCTCTGACACTGCCATCATCCTACAGTGACAGGGGATCATCATCAACAGTAAAGAAAAGACACA
*
932042 TATCAATCTAACAACAAATCAAAAAAATAGAAAACAAATTCACAGATATCACGAGGATATCTACC
439 TATCAATCTAACAACAAATCAAAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACC
* * *
932107 GTATCAAAACAACCAGAATAGGGAACTCATACCCTATATTTAGGGAACCTAAGTCATCAAATCAA
504 ATATCAAAACAACCATAATAGGGCACTCATACCCTAT-TTTAGGGAACCTAAGTCATCAAATCAA
* *
932172 CCAACATACAGAGGGGAGGGGGTTTCTTTAAAAATAGAGAGTGATTTCAGAGAAACAAAC-GAAG
568 CCAACATACAGAGGGGAGGGGGTTTCTTTAAAAATAGAGAGAGATTTCAGAGAAACACACAG-AG
* * * * * *
932236 AGTGCCCAGAAAGAAAAAAA-AGATAAAATCCTAATTAG-AAATAGAATAAATTATG-AAACGTC
632 AGTGCCCAGAAAGAAAAAAACAGAGAAAATCCAAAAT-GTAAATAAAATAAATTACGAAAACATC
* *
932298 TTCAATATCATTTTGGCTCATCCAGATCCTCATTTCTCTAAGTAACATTTACCAACT-TGGTTAC
696 TTCAATATC-GTTTGGCTCATCCAGATCATCATTTCTCTAAGTAACATTTACCAACTCTGGTTAC
*
932362 CTCACTATAGATATTGTAAGCACCCATTTTT-ACC-TGGGTATAAA-AT-ATTATTATTATATTA
760 CTCACTATAGATATTGTAAGCACCCATTTTTGACCAAGGGTA-AAATATCATTATTATTATATTA
* * **
932423 ATAATAATTATTATAGTTAATTGTTA-ATTTA-CATT-TTGTGTAGGCCCTACCTT-TAGA-TCC
824 ATAATAATTATTATAGTT-ATTATTAGATTTATCATTATTAT-TA----CTA--TTATA-ATTAA
* * * *
932483 ATCCCAA-TTACAAAACATGGA-AC-CCAA-CTTGA-ACCCAA-GAAAGTTAC-AAG-GTC-AAC
880 ATCCCAATTTACAAAACATGCAGACACCAACCTTCAGACCCAACCAAA-TTACAAAGCATCAAAC
932539 CC
944 CC
* * * *
932541 -AG-GC--GA-AG---C----T------AACAAGCC-CAA---C-AACCCAGGGTATGACTCATC
1 AAGCCCAAGATAGTTACAAGGTCAACCCAACAAGCCAAAAGCCCAAAACCAGGGTATGACCCATC
*
932583 AGACTCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAATCCTAAAC
66 AGACTCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAACCCTAAAC
* * * *
932648 ACATTAAGGTTTATGGTGATAATTCCCAGCACCACCTCCAACACCAGCTATTAGATATGGACCTA
131 ACATTAA-GTTTCTGGTGATAATTCTCAGCACCACCTCCAACACCAGCTATTAGATCTGGACCCA
* * * *
932713 ACCAAC-AGTCCAGATTGCCCCGATGATAGGGTTTTTACCCTAAT-T--CAACACTGCTCTATCT
195 ACCAACGA-TCCAGATCGCCCCGATGATAAGGTTTTCACCCTAATCTAGCGACACT-C-CTATCT
* * * * *
932774 CGTCCACTGATATGAACCCAAATTAGTGATCTATATTAGTGACCATTTAGGGTTACTAAAACCCT
257 CGTCCACTGATATG-ACCCAAATCAATGATCTAGATTAGTGA-TATTTAGGGTT-GTAAAACCCT
* ** * * * * * * * *
932839 AATCCTAGGCAATTACTATCTCCACCACTACATACTGTTGCTGTCGCCTCCGACTGTATCTAACA
319 AAACCTAGATAATTATTACCACCGCCACTGCATGCTGTTGCTGTCGCCTCCGACTGTCTCTGACA
* * * *
932904 CTGTCATCATCCTAGAGTGACAGGGGATCAACATCAACAGTAAAGAAAAGAAACATATCAGA-CT
384 CTGCCATCATCCTACAGTGACAGGGGATCATCATCAACAGTAAAGAAAAGACACATATCA-ATCT
* *
932968 AAAAACAAAT--AAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACCATACCAAAA
448 AACAACAAATCAAAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACCATATCAAAA
** * *
933031 CAACCATAATAGGGCACTCATACCCTATTTTAGGGAACCTAAGTCATCAAATCGGCTAACATATA
513 CAACCATAATAGGGCACTCATACCCTATTTTAGGGAACCTAAGTCATCAAATCAACCAACATACA
* * * * *
933096 GAAGGGA-GGGGTTTCTTTAAAAAGAGTGAGAGATTTCAGAGAAACACACAGAGAGTACTCAGAA
578 GAGGGGAGGGGGTTTCTTTAAAAATAGAGAGAGATTTCAGAGAAACACACAGAGAGTGCCCAGAA
*
933160 AGAAAAAAATAGAGAAAATCCAAAA
643 AGAAAAAAACAGAGAAAATCCAAAA
933185 AAACTAGAGA
Statistics
Matches: 2879, Mismatches: 427, Indels: 328
0.79 0.12 0.09
Matches are distributed among these distances:
904 2 0.00
905 42 0.01
906 70 0.02
907 4 0.00
909 2 0.00
913 58 0.02
914 57 0.02
915 78 0.03
916 60 0.02
917 387 0.13
918 93 0.03
919 90 0.03
920 310 0.11
921 37 0.01
922 2 0.00
923 6 0.00
924 3 0.00
925 3 0.00
926 2 0.00
927 1 0.00
928 1 0.00
929 1 0.00
930 4 0.00
931 1 0.00
932 2 0.00
933 4 0.00
934 125 0.04
935 122 0.04
936 16 0.01
937 25 0.01
940 2 0.00
941 9 0.00
942 2 0.00
943 158 0.05
944 10 0.00
945 36 0.01
946 56 0.02
947 78 0.03
948 37 0.01
949 39 0.01
950 2 0.00
951 5 0.00
952 1 0.00
953 7 0.00
954 15 0.01
955 12 0.00
956 36 0.01
957 62 0.02
958 456 0.16
959 134 0.05
960 98 0.03
961 16 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (945 bp):
AAGCCCAAGATAGTTACAAGGTCAACCCAACAAGCCAAAAGCCCAAAACCAGGGTATGACCCATC
AGACTCGACCCAGTGCAAGACCCGAAGCCCGTATCTGACCTGACCCAGAACCTAAAACCCTAAAC
ACATTAAGTTTCTGGTGATAATTCTCAGCACCACCTCCAACACCAGCTATTAGATCTGGACCCAA
CCAACGATCCAGATCGCCCCGATGATAAGGTTTTCACCCTAATCTAGCGACACTCCTATCTCGTC
CACTGATATGACCCAAATCAATGATCTAGATTAGTGATATTTAGGGTTGTAAAACCCTAAACCTA
GATAATTATTACCACCGCCACTGCATGCTGTTGCTGTCGCCTCCGACTGTCTCTGACACTGCCAT
CATCCTACAGTGACAGGGGATCATCATCAACAGTAAAGAAAAGACACATATCAATCTAACAACAA
ATCAAAAAAATAGAAAACAAATTCACAGATATCCCGAGGATATCTACCATATCAAAACAACCATA
ATAGGGCACTCATACCCTATTTTAGGGAACCTAAGTCATCAAATCAACCAACATACAGAGGGGAG
GGGGTTTCTTTAAAAATAGAGAGAGATTTCAGAGAAACACACAGAGAGTGCCCAGAAAGAAAAAA
ACAGAGAAAATCCAAAATGTAAATAAAATAAATTACGAAAACATCTTCAATATCGTTTGGCTCAT
CCAGATCATCATTTCTCTAAGTAACATTTACCAACTCTGGTTACCTCACTATAGATATTGTAAGC
ACCCATTTTTGACCAAGGGTAAAATATCATTATTATTATATTAATAATAATTATTATAGTTATTA
TTAGATTTATCATTATTATTACTATTATAATTAAATCCCAATTTACAAAACATGCAGACACCAAC
CTTCAGACCCAACCAAATTACAAAGCATCAAACCC
Found at i:945357 original size:2 final size:2
Alignment explanation
Indices: 945350--945379 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
945340 TTATGATACA
945350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
945380 GGCTCTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:945704 original size:21 final size:21
Alignment explanation
Indices: 945662--945704 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
945652 ACCCGATCTC
* *
945662 TAATATATGTTTTCTGATATA
1 TAATATATGTTATCTCATATA
945683 TAATATAT-TTATCTCATGATA
1 TAATATATGTTATCTCAT-ATA
945704 T
1 T
945705 TTGATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
TAATATATGTTATCTCATATA
Found at i:955013 original size:24 final size:24
Alignment explanation
Indices: 954981--955026 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
954971 GCTTCCATAT
954981 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
955005 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
955027 CATGTCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:964270 original size:15 final size:16
Alignment explanation
Indices: 964250--964279 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
964240 TTTTTACGTA
964250 ATAATTG-AAATTTTT
1 ATAATTGAAAATTTTT
964265 ATAATTGAAAATTTT
1 ATAATTGAAAATTTT
964280 GGATCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
ATAATTGAAAATTTTT
Found at i:964923 original size:44 final size:44
Alignment explanation
Indices: 964834--964923 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
964824 TTACTAAAAA
* * * **
964834 TGAATTATAAAGTTATTTAAATTCGACATGAGAGAATAAGCACT
1 TGAATTATAAAGTTATTCAAATTCGACATAAGAGAACAAAAACT
964878 TGAATTATAAAGTTATTCAAATTCGAC-TCAAGAGAACAAAAACT
1 TGAATTATAAAGTTATTCAAATTCGACAT-AAGAGAACAAAAACT
964922 TG
1 TG
964924 GATAAATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (44 bp):
TGAATTATAAAGTTATTCAAATTCGACATAAGAGAACAAAAACT
Found at i:992868 original size:29 final size:28
Alignment explanation
Indices: 992833--992888 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
992823 TAACCGGTTT
*
992833 TCAACCGGTTCTG-ACCAGTTTGACCGGTA
1 TCAACCGGTTC-GAACC-GGTTGACCGGTA
992862 TCAACCGGTTCGAACCGGTTGACCGGT
1 TCAACCGGTTCGAACCGGTTGACCGGT
992889 CTGACCCGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.25
Consensus pattern (28 bp):
TCAACCGGTTCGAACCGGTTGACCGGTA
Found at i:992901 original size:5 final size:5
Alignment explanation
Indices: 992891--992934 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
992881 TGACCGGTCT
992891 GACCC GACCC GA-CC GACCC GA-CC GACCCCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GA--CCC GACCC GACCC GACC
992935 GTTGACCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 8 0.23
5 23 0.66
7 4 0.11
ACGTcount: A:0.20, C:0.59, G:0.20, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:992906 original size:9 final size:9
Alignment explanation
Indices: 992894--992934 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
992884 CCGGTCTGAC
992894 CCGACCCGA
1 CCGACCCGA
992903 CCGACCCGA
1 CCGACCCGA
992912 CCGACCC--
1 CCGACCCGA
992919 CCGACCCGA
1 CCGACCCGA
992928 CCCGACC
1 -CCGACC
992935 GTTGACCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.24
9 16 0.55
10 6 0.21
ACGTcount: A:0.20, C:0.61, G:0.20, T:0.00
Consensus pattern (9 bp):
CCGACCCGA
Found at i:992924 original size:16 final size:17
Alignment explanation
Indices: 992891--992934 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 17
992881 TGACCGGTCT
992891 GACCCGACCCGACCGACCC
1 GACCCGACCC--CCGACCC
992910 GA-CCGACCCCCGACCC
1 GACCCGACCCCCGACCC
992926 GACCCGACC
1 GACCCGACC
992935 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
17 6 0.25
18 7 0.29
19 2 0.08
ACGTcount: A:0.20, C:0.59, G:0.20, T:0.00
Consensus pattern (17 bp):
GACCCGACCCCCGACCC
Found at i:1000185 original size:18 final size:18
Alignment explanation
Indices: 1000136--1000186 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1000126 CCGGTTTTCA
1000136 ACCGGTTCTG-ACCAGTTTG
1 ACCGG-TCTGAACC-GTTTG
* *
1000155 ACCGGTTTCAACCGTTTG
1 ACCGGTCTGAACCGTTTG
1000173 ACCGGTCTGAACCG
1 ACCGGTCTGAACCG
1000187 GTCTGACCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.18, C:0.29, G:0.25, T:0.27
Consensus pattern (18 bp):
ACCGGTCTGAACCGTTTG
Found at i:1000225 original size:17 final size:18
Alignment explanation
Indices: 1000191--1000258 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 18
1000181 GAACCGGTCT
1000191 GACCCGACCGACTGACCC
1 GACCCGACCGACTGACCC
*
1000209 GACCCGACCG-TTGACCC
1 GACCCGACCGACTGACCC
*
1000226 GACCGTTGACCGACTGTTGACCC
1 GACC--CGACCGAC---TGACCC
1000249 GACCCGACCG
1 GACCCGACCG
1000259 GACCGTTGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 10 0.25
18 10 0.25
19 5 0.12
21 5 0.12
23 10 0.25
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.12
Consensus pattern (18 bp):
GACCCGACCGACTGACCC
Found at i:1000226 original size:12 final size:12
Alignment explanation
Indices: 1000209--1000283 Score: 75
Period size: 12 Copynumber: 6.3 Consensus size: 12
1000199 CGACTGACCC
1000209 GACCCGACCGTT
1 GACCCGACCGTT
1000221 GACCCGACCGTT
1 GACCCGACCGTT
*
1000233 GA-CCGACTGTT
1 GACCCGACCGTT
*
1000244 GACCCGACC--C
1 GACCCGACCGTT
*
1000254 GACCGGACCGTT
1 GACCCGACCGTT
*
1000266 GACCATTGACCGTT
1 GACC--CGACCGTT
1000280 GACC
1 GACC
1000284 GTTGACTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
10 8 0.15
11 10 0.19
12 23 0.44
14 11 0.21
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:1000238 original size:23 final size:23
Alignment explanation
Indices: 1000212--1000284 Score: 78
Period size: 23 Copynumber: 3.1 Consensus size: 23
1000202 CTGACCCGAC
1000212 CCGACCGTTGACCCGACCGTTGA
1 CCGACCGTTGACCCGACCGTTGA
* *
1000235 CCGACTGTTGACCCGACC--CGA
1 CCGACCGTTGACCCGACCGTTGA
*
1000256 CCGGACCGTTGACCATTGACCGTTGA
1 CC-GACCGTTGACC--CGACCGTTGA
1000282 CCG
1 CCG
1000285 TTGACTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 4 0.10
22 10 0.25
23 17 0.43
24 4 0.10
25 1 0.03
26 4 0.10
ACGTcount: A:0.18, C:0.38, G:0.26, T:0.18
Consensus pattern (23 bp):
CCGACCGTTGACCCGACCGTTGA
Found at i:1000274 original size:7 final size:7
Alignment explanation
Indices: 1000259--1000289 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1000249 GACCCGACCG
1000259 GACCGTT
1 GACCGTT
*
1000266 GACCATT
1 GACCGTT
1000273 GACCGTT
1 GACCGTT
1000280 GACCGTT
1 GACCGTT
1000287 GAC
1 GAC
1000290 TTTATTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:1002907 original size:28 final size:28
Alignment explanation
Indices: 1002867--1002929 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
1002857 CCGTCATCTT
* *
1002867 GTTCTTGGTTGGAGAAATAATCCACTAA
1 GTTCTTGGCTGGAGAAACAATCCACTAA
1002895 GTTCTTGGCTGGAGAAACAATCCACTAA
1 GTTCTTGGCTGGAGAAACAATCCACTAA
1002923 GTTCTTG
1 GTTCTTG
1002930 CAAAACAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (28 bp):
GTTCTTGGCTGGAGAAACAATCCACTAA
Found at i:1011674 original size:54 final size:55
Alignment explanation
Indices: 1011521--1011698 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 55
1011511 ATTGCCAAAT
*
1011521 GGCACTA-ATTGTGAAAAACTTAAGAAATCTATACTAAGTGTATGAATTTCTGTATG
1 GGCACTATA-TGTGCAAAAC-TAAGAAATCTATACTAAGTGTATGAATTTCTGTATG
*
1011577 GGCACTTTGA-GTGCAAAACTAAGAAAT-TCATACTAAGTGTATGAATTT-TCGTATG
1 GGCACTAT-ATGTGCAAAACTAAGAAATCT-ATACTAAGTGTATGAATTTCT-GTATG
*
1011632 GGCACTATATGTGC-AAACTAAGAAATCTATATTAAGTGTATGAATTTCTGTATG
1 GGCACTATATGTGCAAAACTAAGAAATCTATACTAAGTGTATGAATTTCTGTATG
* *
1011686 GGAAATATATGTG
1 GGCACTATATGTG
1011699 AAATTATCAG
Statistics
Matches: 109, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
54 49 0.45
55 45 0.41
56 14 0.13
58 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (55 bp):
GGCACTATATGTGCAAAACTAAGAAATCTATACTAAGTGTATGAATTTCTGTATG
Found at i:1012607 original size:81 final size:81
Alignment explanation
Indices: 1011967--1012584 Score: 736
Period size: 81 Copynumber: 7.6 Consensus size: 81
1011957 GTGCCTTTCA
* * *
1011967 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTT-AAGAACAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1012031 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * * * * ** * *
1012047 GACCCAACTGTGCATTTGGTAGAAATGTGTCAATTATGTCAGTTCTATGAATGGTTAAAGACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1012112 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * * * *
1012128 GGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATACTAGTTAGATGAACGATTAAAGATCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
1012193 TGAGTAAAAAATAAAT
66 TGAGTAAAAGATAAAT
* ** * * * * * * *
1012209 GGCGTAGCTACGTATTTCGTAGAAAGGTGTCAATTATGCTAGTTATATGAACAGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
1012274 TCAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * ***
1012290 GGCATAGCTGTGCATTTGGCAGAAAGGTGTAAATTATGCCAGTTAGATGAACGGTTAAAAATTAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1012355 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * * * * *
1012371 GGCCTAGCTGTGCATTTGGAAAAAATGTTTAAATTATGCCAGTTAGATGAGCGGTTAAAGGCCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
*
1012436 TGAATAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* *
1012452 GGCCTAGCTGTGCATATGGCAGAAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAAGACCG
1 GGCCTAGCTGTGCATTTGGCAG-AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCG
1012517 TTGAGTAAAAGATAAAT
65 TTGAGTAAAAGATAAAT
* * * * *
1012534 GTCCTAACTATGCATTTGGCAGGAAA-GTGTCAATCATGCAAGTTAGATGAA
1 GGCCTAGCTGTGCATTTGGCA-GAAAGGTGTCAATTATGCCAGTTAGATGAA
1012585 ATCTTAAATG
Statistics
Matches: 454, Mismatches: 81, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
80 48 0.11
81 333 0.73
82 72 0.16
83 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
TGAGTAAAAGATAAAT
Found at i:1012698 original size:49 final size:49
Alignment explanation
Indices: 1012634--1012767 Score: 119
Period size: 49 Copynumber: 2.7 Consensus size: 49
1012624 ATGCATTTGG
** * * *
1012634 ATATAAACGGTGCATAAGTGGTATGAAAGGATGCCATATA-G-ATATAAA
1 ATATAAACAATGCATAA-TGGTATGAAAGGATGCCATAAAGGAAAAGAAA
* * * *
1012682 ATATACAACAATGCATAATTAGTATGAATGTATGTCATAAAGGAAAAGAAA
1 ATATA-AACAATGCATAA-TGGTATGAAAGGATGCCATAAAGGAAAAGAAA
* *
1012733 ATGTAAACAATACATAATGGGTATGAAAGGATGCC
1 ATATAAACAATGCATAAT-GGTATGAAAGGATGCC
1012768 CAAATGAGAA
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
48 5 0.08
49 28 0.42
50 24 0.36
51 9 0.14
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (49 bp):
ATATAAACAATGCATAATGGTATGAAAGGATGCCATAAAGGAAAAGAAA
Found at i:1016723 original size:20 final size:20
Alignment explanation
Indices: 1016672--1016723 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1016662 ATTCAAGTGC
*
1016672 TATCGATACCAAGAGGGGAG
1 TATCGATACCATGAGGGGAG
*
1016692 TATCGATACCATGAGGATG-G
1 TATCGATACCATGAGG-GGAG
1016712 TATCGATACCAT
1 TATCGATACCAT
1016724 TAATCACAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (20 bp):
TATCGATACCATGAGGGGAG
Found at i:1054471 original size:21 final size:20
Alignment explanation
Indices: 1054420--1054472 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1054410 TGTATGCTTG
*
1054420 AGTATCGATACTTAGGGTCC
1 AGTATCGATACTTAGGGTAC
* *
1054440 AATATCAATACTTAGAGGGTAC
1 AGTATCGATACTT--AGGGTAC
1054462 -GTATCGATACT
1 AGTATCGATACT
1054473 GGTCATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.42
21 9 0.35
22 6 0.23
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (20 bp):
AGTATCGATACTTAGGGTAC
Found at i:1057101 original size:39 final size:35
Alignment explanation
Indices: 1057058--1057148 Score: 87
Period size: 35 Copynumber: 2.5 Consensus size: 35
1057048 ATAATAAGAA
*
1057058 AAAATATATAAAATATCAACATGATAAATAAATGAAACT
1 AAAATATATAAAATATAAACA--ATAAATAAAT--AACT
*
1057097 AAAATA-AAAAAAT-TAAACAATAAATAAATAACT
1 AAAATATATAAAATATAAACAATAAATAAATAACT
1057130 ACAAGATATATATAAATAT
1 A-AA-ATATATA-AAATAT
1057149 GATTATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
33 5 0.11
34 2 0.05
35 13 0.30
36 2 0.05
37 9 0.20
38 7 0.16
39 6 0.14
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (35 bp):
AAAATATATAAAATATAAACAATAAATAAATAACT
Found at i:1057103 original size:19 final size:20
Alignment explanation
Indices: 1057081--1057127 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1057071 TATCAACATG
*
1057081 ATAAATAAATGAAACTA-AA
1 ATAAATAAATGAAACAATAA
* *
1057100 ATAAAAAAATTAAACAATAA
1 ATAAATAAATGAAACAATAA
1057120 ATAAATAA
1 ATAAATAA
1057128 CTACAAGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
ATAAATAAATGAAACAATAA
Done.