Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 78
Found at i:741395 original size:18 final size:18
Alignment explanation
Indices: 741355--741397 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
741345 AAGGGGGTGT
**
741355 ATCGATGCACTCTTATGC
1 ATCGATGCACTAATATGC
741373 ATCGATGCACTAAT-TGC
1 ATCGATGCACTAATATGC
741390 ATTCGATG
1 A-TCGATG
741398 TTTTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (18 bp):
ATCGATGCACTAATATGC
Found at i:747502 original size:406 final size:406
Alignment explanation
Indices: 746739--747556 Score: 1557
Period size: 406 Copynumber: 2.0 Consensus size: 406
746729 TCGAAGTTTC
*
746739 TTTGGTCTCGCAGGTTATTATATGAGGTTTGTTAAAAACTTTTCGATGATATCTCTGCCTTTATC
1 TTTGTTCTCGCAGGTTATTATATGAGGTTTGTTAAAAACTTTTCGATGATATCTCTGCCTTTATC
746804 TAAATTATTAAGAAATGATGTACATTTTGAATGGACTCCTAAATGCCAGAAGAGCTTTGAAACAT
66 TAAATTATTAAGAAATGATGTACATTTTGAATGGACTCCTAAATGCCAGAAGAGCTTTGAAACAT
*
746869 TTAAGAAAGTTCTGACTGAAGCTCCAGTGTTGGTGCAACCGGAATCAAACAAGGATTTCACAATT
131 TTAAGAAAGTTCTGACCGAAGCTCCAGTGTTGGTGCAACCGGAATCAAACAAGGATTTCACAATT
746934 TTCAGTGATATTTCCCATAATGGTTTGGGTTGTGTTTTAATGCGATATGGGAAGGTAGTCGCTTA
196 TTCAGTGATATTTCCCATAATGGTTTGGGTTGTGTTTTAATGCGATATGGGAAGGTAGTCGCTTA
* *
746999 TGCCTCGAGACAGTTGAAGCCTCATGAAAAGAATTATTCGTCGCATGATTTGGAGTTAGCACCTG
261 TGCCTCGAGACAGTTGAAGCCTCATGAAAAGAATTATTCGACGCATGATTTGGAGTTAGCAACTG
747064 TGGTATTTGCATCAAAATTTGAAGGCACTATTTGTATGGTGAGCGTTGCTATATCTTCACCGATC
326 TGGTATTTGCATCAAAATTTGAAGGCACTATTTGTATGGTGAGCGTTGCTATATCTTCACCGATC
*
747129 ACAAGAGCTTGAAGTA
391 ACAAGAGCTTGAAATA
*
747145 TTTGTTCTCGTAGGTTATTATATGAGGTTTGTTAAAAACTTTTCGATGATATCTCTGCCTTTATC
1 TTTGTTCTCGCAGGTTATTATATGAGGTTTGTTAAAAACTTTTCGATGATATCTCTGCCTTTATC
747210 TAAATTATTAAGAAATGATGTACATTTTGAATGGACTCCTAAATGCCAGAAGAGCTTTGAAACAT
66 TAAATTATTAAGAAATGATGTACATTTTGAATGGACTCCTAAATGCCAGAAGAGCTTTGAAACAT
747275 TTAAGAAAGTTCTGACCGAAGCTCCAGTGTTGGTGCAACCGGAATCAAACAAGGATTTCACAATT
131 TTAAGAAAGTTCTGACCGAAGCTCCAGTGTTGGTGCAACCGGAATCAAACAAGGATTTCACAATT
747340 TTCAGTGATATTTCCCATAATGGTTTGGGTTGTGTTTTAATGCGATATGGGAAGGTAGTCGCTTA
196 TTCAGTGATATTTCCCATAATGGTTTGGGTTGTGTTTTAATGCGATATGGGAAGGTAGTCGCTTA
747405 TGCCTCGAGACAGTTGAAGCCTCATGAAAAGAATTATTCGAC-CATGATTTGGAGTTAGCAACTG
261 TGCCTCGAGACAGTTGAAGCCTCATGAAAAGAATTATTCGACGCATGATTTGGAGTTAGCAACTG
*
747469 TGGTATTTGCATCAAAAATTTGGAGGCACTATTTGTATGGTGAGCGTTGCTATATCTTCACCGAT
326 TGGTATTTGCATC-AAAATTTGAAGGCACTATTTGTATGGTGAGCGTTGCTATATCTTCACCGAT
747534 CACAAGAGCTTGAAATA
390 CACAAGAGCTTGAAATA
747551 TTTGTT
1 TTTGTT
747557 GACTTAAAAG
Statistics
Matches: 404, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
405 34 0.08
406 370 0.92
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (406 bp):
TTTGTTCTCGCAGGTTATTATATGAGGTTTGTTAAAAACTTTTCGATGATATCTCTGCCTTTATC
TAAATTATTAAGAAATGATGTACATTTTGAATGGACTCCTAAATGCCAGAAGAGCTTTGAAACAT
TTAAGAAAGTTCTGACCGAAGCTCCAGTGTTGGTGCAACCGGAATCAAACAAGGATTTCACAATT
TTCAGTGATATTTCCCATAATGGTTTGGGTTGTGTTTTAATGCGATATGGGAAGGTAGTCGCTTA
TGCCTCGAGACAGTTGAAGCCTCATGAAAAGAATTATTCGACGCATGATTTGGAGTTAGCAACTG
TGGTATTTGCATCAAAATTTGAAGGCACTATTTGTATGGTGAGCGTTGCTATATCTTCACCGATC
ACAAGAGCTTGAAATA
Found at i:750624 original size:21 final size:21
Alignment explanation
Indices: 750598--750642 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
750588 GTCGAGGGTA
* * *
750598 TATGTGGTCTTTCGGGATAAT
1 TATGTGGTCCTTCGAGACAAT
750619 TATGTGGTCCTTCGAGACAAT
1 TATGTGGTCCTTCGAGACAAT
750640 TAT
1 TAT
750643 ATGGCACTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.40
Consensus pattern (21 bp):
TATGTGGTCCTTCGAGACAAT
Found at i:750986 original size:599 final size:600
Alignment explanation
Indices: 750079--751238 Score: 1984
Period size: 599 Copynumber: 1.9 Consensus size: 600
750069 TACCCCCAGC
*
750079 ATGAAATGAAATATTGGGTTTTTGTATATCAAGTAGTTGTGATTCGATATGATTAAGATAAGATC
1 ATGAAATAAAATATTGGGTTTTTGTATATCAAGTAGTTGTGATTCGATATGATTAAGATAAGATC
*
750144 GATATTGACTCTAGATTATTGGTGTAGTGATCGAACTTAATTGACTTCCAGTCAGCTTAGTATTT
66 GATATTGACTCTAGATTA-TGGTGTAGTGATCGAACGTAATTGACTTCCAGTCAGCTTAGTATTT
*
750209 TCGAGTATCAATTCAAAAGGATTTGGATTAGACTTTAGTGAGGAAAAGGTGAGTGCAACTTCTCT
130 TCGAGTATCAATTCAAAAGGATTTGGATTAGAATTTAGTGAGGAAAAGGTGAGTGCAACTTCTCT
* *
750274 TTTCGTAATAGAATTAAGGAAGGCTTGCAATAAGCCAACCTCTGTGTTTTCGATAGAAAACTTTA
195 TTTCGTAATAGAATTAAGGAAGGCTCGCAATAAGCCAACCTCTATGTTTTCGATAGAAAACTTTA
* *
750339 TATTATTTTACGTTCTATTTCAATGTTTTAAGAAATTTCCAGTATATATATACTATGTTTTGTGA
260 TATTATTTTACGTTCTATTTCAATGTTTTAAGAAATTTCCAATATATATATACTATGTTTTATGA
* * * * *
750404 TTATATGTTATGGAAATGTGAACCTTGAACAAGTGATTCTAAACTTTGAACCAGTGAATGTGAAT
325 TTATATATTATGGAAATATGAACCTTGAACAAGTGATTATAAACTTTGAACCAGTGAATATGAAC
* *
750469 AAACTCTATGTGAAAGAGCTATGTGAATAAGAAACACTTTGATTAATGATTGAACAATATTA-TG
390 AAACTCTATGAGAAAGAGCTATGTGAATAAGAAACACTTTGAGTAATGATTGAACAATATTAGTG
* * *
750533 ATTAAAAGTCCAATGTATATGTATGAGGATTAGAGGTATAGTTGGTATGCCAAGAGTCGAGGGTA
455 ATT-AAAGCCCAATGTATATGTATGAGGATTAGAGGTATAGTTGGCATGCAAAGAGTCGAGGGTA
*
750598 TATGTGGTCTTTCGGGATAATTATGTGGTCCTTCGAGACAATTATATGGCACTTCGATGCAAATT
519 TATGTGGTCCTTC-GGATAATTATGTGGTCCTTCGAGACAATTATATGGCACTTCGATGCAAATT
750663 ACAAGCTGTGGTGACAAT
583 ACAAGCTGTGGTGACAAT
* *
750681 ATGAAATAAAATATTGGGTTTTTGTATATCAAGTTGTTGTGATTCGATATGATTAAGATAATATC
1 ATGAAATAAAATATTGGGTTTTTGTATATCAAGTAGTTGTGATTCGATATGATTAAGATAAGATC
* *
750746 GATATTGACTCTAGATTA-GGTGTAGTGATTGAACGTAATTGACTT-CAGTCAGTTTAGTATTTT
66 GATATTGACTCTAGATTATGGTGTAGTGATCGAACGTAATTGACTTCCAGTCAGCTTAGTATTTT
*
750809 CGAGTATCAATTCAAAAGGATTTGGATTAGAATTTAGTGAGGCAAAGGTGAGTGCAACTTCTCTT
131 CGAGTATCAATTCAAAAGGATTTGGATTAGAATTTAGTGAGGAAAAGGTGAGTGCAACTTCTCTT
* * *
750874 TTCGTAATAGAATTGAGGAAGGCTCGCGATAAGCCAACCTCTATGTTTTCGATCGAAAACTTTAT
196 TTCGTAATAGAATTAAGGAAGGCTCGCAATAAGCCAACCTCTATGTTTTCGATAGAAAACTTTAT
* *
750939 ATTATTTTATGTTCTATTTCAATGTTTTATGAAATTTCCAATATATATATACTATGTTTTATGAT
261 ATTATTTTACGTTCTATTTCAATGTTTTAAGAAATTTCCAATATATATATACTATGTTTTATGAT
* *
751004 TATATATTATGGAAATATGAACCTTTAACAAGTGATTATGAACTTTGAACCAGTGAATATGAACA
326 TATATATTATGGAAATATGAACCTTGAACAAGTGATTATAAACTTTGAACCAGTGAATATGAACA
751069 AACTCTATGAGAAAGAGCTATGTGAATAAGAAACACTTTGAGTAATGATTGAACAATATTATGTG
391 AACTCTATGAGAAAGAGCTATGTGAATAAGAAACACTTTGAGTAATGATTGAACAATATTA-GTG
751134 ATTAAAGCCCAATGTATATGTATGAGGATTAGAGGTATAGTTGGCATGCAAAGAGTCGAGGGTAT
455 ATTAAAGCCCAATGTATATGTATGAGGATTAGAGGTATAGTTGGCATGCAAAGAGTCGAGGGTAT
*
751199 ATGTGGTCCTTCGGATAATTATGTGGTCCTTCGGGACAAT
520 ATGTGGTCCTTCGGATAATTATGTGGTCCTTCGAGACAAT
751239 CATGTGGTCT
Statistics
Matches: 525, Mismatches: 31, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
599 345 0.66
600 95 0.18
601 5 0.01
602 80 0.15
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (600 bp):
ATGAAATAAAATATTGGGTTTTTGTATATCAAGTAGTTGTGATTCGATATGATTAAGATAAGATC
GATATTGACTCTAGATTATGGTGTAGTGATCGAACGTAATTGACTTCCAGTCAGCTTAGTATTTT
CGAGTATCAATTCAAAAGGATTTGGATTAGAATTTAGTGAGGAAAAGGTGAGTGCAACTTCTCTT
TTCGTAATAGAATTAAGGAAGGCTCGCAATAAGCCAACCTCTATGTTTTCGATAGAAAACTTTAT
ATTATTTTACGTTCTATTTCAATGTTTTAAGAAATTTCCAATATATATATACTATGTTTTATGAT
TATATATTATGGAAATATGAACCTTGAACAAGTGATTATAAACTTTGAACCAGTGAATATGAACA
AACTCTATGAGAAAGAGCTATGTGAATAAGAAACACTTTGAGTAATGATTGAACAATATTAGTGA
TTAAAGCCCAATGTATATGTATGAGGATTAGAGGTATAGTTGGCATGCAAAGAGTCGAGGGTATA
TGTGGTCCTTCGGATAATTATGTGGTCCTTCGAGACAATTATATGGCACTTCGATGCAAATTACA
AGCTGTGGTGACAAT
Found at i:751043 original size:21 final size:22
Alignment explanation
Indices: 751017--751067 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
751007 ATATTATGGA
751017 AATATGAACCTTT-AACAAGTG
1 AATATGAACCTTTGAACAAGTG
* *
751038 ATTATGAA-CTTTGAACCAGTG
1 AATATGAACCTTTGAACAAGTG
751059 AATATGAAC
1 AATATGAAC
751068 AAACTCTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (22 bp):
AATATGAACCTTTGAACAAGTG
Found at i:751223 original size:20 final size:21
Alignment explanation
Indices: 751198--751247 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
751188 GTCGAGGGTA
*
751198 TATGTGGTCCTTC-GGATAAT
1 TATGTGGTCCTTCGGGACAAT
751218 TATGTGGTCCTTCGGGACAAT
1 TATGTGGTCCTTCGGGACAAT
*
751239 CATGTGGTC
1 TATGTGGTC
751248 TCCAGGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAT
Found at i:753861 original size:25 final size:23
Alignment explanation
Indices: 753812--753863 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
753802 TTCGAGACAT
*
753812 ATAGTGATCCTTCGGGATATTTC
1 ATAGTGATCCTTCGGGATATCTC
*
753835 ATAGTGGTCCTTCGGGATAAATCTC
1 ATAGTGATCCTTCGGGAT--ATCTC
753860 ATAG
1 ATAG
753864 CCCCTAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.68
25 8 0.32
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (23 bp):
ATAGTGATCCTTCGGGATATCTC
Found at i:757783 original size:64 final size:63
Alignment explanation
Indices: 757678--757797 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 63
757668 ATTGTTCAAG
* * **
757678 GTGTATCGATGCACATGAAGTGCATCGATGCACTATTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCACCTT-AAATAAAAACATCGAATGCCATCA
* * *
757742 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAATACAAACATCGAAT
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCACCTTAAATAAAAACATCGAAT
757798 ATGATTTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 16 0.33
64 33 0.67
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (63 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCACCTTAAATAAAAACATCGAATGCCATCA
Found at i:759562 original size:11 final size:11
Alignment explanation
Indices: 759546--759596 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
759536 AACTAATATA
*
759546 CTAACTATCTT
1 CTAACTAACTT
*
759557 CTAACTAACTA
1 CTAACTAACTT
*
759568 CTAACAAACTT
1 CTAACTAACTT
759579 CCTAACTAA-TT
1 -CTAACTAACTT
759590 CTCAACT
1 CT-AACT
759597 TCTCAACATC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 2 0.06
11 24 0.73
12 7 0.21
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.33
Consensus pattern (11 bp):
CTAACTAACTT
Found at i:763816 original size:42 final size:42
Alignment explanation
Indices: 763764--763853 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
763754 CAAAATCATG
*
763764 AACCACTTGTCATTTCAGCAACACTTAACCACATTCCTTTGAA
1 AACC-CTTGTCATTTCAACAACACTTAACCACATTCCTTTGAA
* *
763807 AACCCTTGTCATTTCAACAACACTTAACCACGTTTCTTTGAA
1 AACCCTTGTCATTTCAACAACACTTAACCACATTCCTTTGAA
763849 AACCC
1 AACCC
763854 AAGTTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 40 0.91
43 4 0.09
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (42 bp):
AACCCTTGTCATTTCAACAACACTTAACCACATTCCTTTGAA
Found at i:764915 original size:40 final size:35
Alignment explanation
Indices: 764834--764945 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
764824 AAAATAGTCC
* *
764834 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
764869 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
** * * *
764904 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
764939 TCAATTT
1 TCAATTT
764946 AAGGTTTAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:765009 original size:35 final size:35
Alignment explanation
Indices: 764941--765015 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
764931 AAAATACTTC
* * *
764941 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
* *
764976 AATTTAGGGTTTAGAATGAAATT-AAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTGAA-GTATTTTGA
765011 AATTT
1 AATTT
765016 TGAACATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTGAAGTATTTTGA
Found at i:775001 original size:2 final size:2
Alignment explanation
Indices: 774996--775023 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
774986 CACATATATG
774996 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
775024 CCTTTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:777471 original size:20 final size:20
Alignment explanation
Indices: 777446--777499 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
777436 GACCAACAAA
*
777446 TTCGCAACGCGAATTCTAAT
1 TTCGCAACGCGAATTCCAAT
* *
777466 TTCGCAACAC-AGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
777486 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
777500 ATGTAAATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:777527 original size:20 final size:21
Alignment explanation
Indices: 777507--777553 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
777497 AATATGTAAA
777507 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
777528 TTGCGTTGCGATTTTCTAAAT
1 TCGCATTGCGATTTTCCAAAT
777549 TCGCA
1 TCGCA
777554 ACGCGATAGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:777570 original size:20 final size:20
Alignment explanation
Indices: 777545--777595 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
777535 GCGATTTTCT
777545 AAATTCGCAACGCGATAGTC
1 AAATTCGCAACGCGATAGTC
*
777565 AAATTCTCAACGCGATAGTC
1 AAATTCGCAACGCGATAGTC
777585 AAATTCGCAAC
1 AAATTCGCAAC
777596 AAGTTTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACGCGATAGTC
Found at i:778533 original size:24 final size:24
Alignment explanation
Indices: 778476--778535 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
778466 TAGTCAGTAT
*
778476 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGATCAATAC
* *
778500 -CCAGACTTTGATCTTGATCAATAC
1 TCGA-AATTTGATCTTGATCAATAC
*
778524 TCGAATTTTGAT
1 TCGAAATTTGAT
778536 GATGTGATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.07
24 25 0.86
25 2 0.07
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGATCAATAC
Found at i:780809 original size:18 final size:18
Alignment explanation
Indices: 780786--780821 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
780776 AAGCAAAAGG
*
780786 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
780804 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
780822 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:781171 original size:20 final size:20
Alignment explanation
Indices: 781146--781199 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
781136 AAACGTTGCA
781146 AATTTGACTATCGCGTAGCG
1 AATTTGACTATCGCGTAGCG
* *
781166 AATTTGACTTTCGCGTTGCG
1 AATTTGACTATCGCGTAGCG
781186 AATTTGACTATCGC
1 AATTTGACTATCGC
781200 AACGCTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
AATTTGACTATCGCGTAGCG
Found at i:781217 original size:34 final size:34
Alignment explanation
Indices: 781174--781258 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
781164 CGAATTTGAC
781174 TTTCGCGTTGCGAATTTGACTATCGCAACGCTTA
1 TTTCGCGTTGCGAATTTGACTATCGCAACGCTTA
781208 TTTCGCGTTGCGAATTTGACTATCGCAACGCTTA
1 TTTCGCGTTGCGAATTTGACTATCGCAACGCTTA
*
781242 TTTCACGTTGCGAATTT
1 TTTCGCGTTGCGAATTT
781259 ACCTTCAACA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (34 bp):
TTTCGCGTTGCGAATTTGACTATCGCAACGCTTA
Found at i:781342 original size:25 final size:25
Alignment explanation
Indices: 781304--781353 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
781294 AAATCAATTA
*
781304 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
781329 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
781354 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:781731 original size:18 final size:18
Alignment explanation
Indices: 781710--781746 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
781700 GTAATTGGAG
781710 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
781728 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
781746 T
1 T
781747 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:781753 original size:24 final size:24
Alignment explanation
Indices: 781702--781754 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
781692 TTTCATATGT
* * *
781702 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
781726 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
781750 AATTT
1 AATTT
781755 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:782035 original size:17 final size:17
Alignment explanation
Indices: 782013--782052 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
782003 TGCTTCCGAT
782013 GCTCATCAAAATCCAAA
1 GCTCATCAAAATCCAAA
782030 GCTCATCAAAATCCAAA
1 GCTCATCAAAATCCAAA
782047 GCTCAT
1 GCTCAT
782053 ATGGTGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.20
Consensus pattern (17 bp):
GCTCATCAAAATCCAAA
Found at i:782515 original size:29 final size:29
Alignment explanation
Indices: 782411--782515 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
782401 AATTTTTTAG
782411 AAACAACAAATCAACTTTTACAAATCAATT
1 AAACAA-AAATCAACTTTTACAAATCAATT
782441 AAACAAGAAAAAAAT-AATTCTTATTCACAAATCAAATT
1 AAAC-----AAAAATCAA--CTT-TT-ACAAATC-AATT
782479 AAAC-AAAATCAACTTTTACAAATCAATT
1 AAACAAAAATCAACTTTTACAAATCAATT
*
782507 AATCAAAAA
1 AAACAAAAA
782516 ATAAATCTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 25
0.70 0.01 0.28
Matches are distributed among these distances:
28 7 0.11
29 11 0.18
30 6 0.10
31 3 0.05
32 5 0.08
33 4 0.06
34 4 0.06
35 5 0.08
36 2 0.03
37 7 0.11
38 8 0.13
ACGTcount: A:0.57, C:0.16, G:0.01, T:0.26
Consensus pattern (29 bp):
AAACAAAAATCAACTTTTACAAATCAATT
Found at i:783947 original size:21 final size:21
Alignment explanation
Indices: 783923--783995 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
783913 GGCGAGACTA
*
783923 CTTGAACGATGACAGTGGCCT
1 CTTGAACGATGACAGAGGCCT
* ** *
783944 CTTGAACGGTGGGAGAGGCTT
1 CTTGAACGATGACAGAGGCCT
* * *
783965 CTTTG-ATGATGATAGGGGCCT
1 C-TTGAACGATGACAGAGGCCT
783986 CTTGAACGAT
1 CTTGAACGAT
783996 AGGAGGCGCC
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
20 3 0.08
21 32 0.84
22 3 0.08
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (21 bp):
CTTGAACGATGACAGAGGCCT
Found at i:784016 original size:42 final size:42
Alignment explanation
Indices: 783923--784022 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
783913 GGCGAGACTA
* * * * * *
783923 CTTGAACGATGACAGTGGCCTCTTGAACGGTGGGAGAGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGAGGCCT
783965 CTTTG-ATGATGATAGGGGCCTCTTGAACGATAGGAG-GCGCCT
1 C-TTGAATGATGATAGGGGCCTCTTGAACGATAGGAGAG-GCCT
784007 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
784023 TGCATCAGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 4 0.08
42 42 0.86
43 3 0.06
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGAGGCCT
Found at i:786479 original size:22 final size:22
Alignment explanation
Indices: 786454--786511 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
786444 GATGGAGATA
786454 GACGGATTTCGTCGGAAATAGG
1 GACGGATTTCGTCGGAAATAGG
* *
786476 GACGGATTTCGTCGGATATGGG
1 GACGGATTTCGTCGGAAATAGG
*
786498 GACGGATGTCGTCG
1 GACGGATTTCGTCG
786512 TAGAGAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATAGG
Found at i:786656 original size:20 final size:20
Alignment explanation
Indices: 786631--786716 Score: 127
Period size: 20 Copynumber: 4.3 Consensus size: 20
786621 CGCGTAAAAA
* *
786631 AATTTGACTTTCGCGTTGCG
1 AATTTGACTATCGCGTTGAG
*
786651 AATTTGACTTTCGCGTTGAG
1 AATTTGACTATCGCGTTGAG
786671 AATTTGACTATCGCGTTGAG
1 AATTTGACTATCGCGTTGAG
* *
786691 AATTTGACTATCGCATTGTG
1 AATTTGACTATCGCGTTGAG
786711 AATTTG
1 AATTTG
786717 GAAAATCGCA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (20 bp):
AATTTGACTATCGCGTTGAG
Found at i:786789 original size:20 final size:20
Alignment explanation
Indices: 786740--786793 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
786730 CGATTTACAT
786740 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* * *
786760 A-ACTGGGTTGTGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
786780 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
786794 TTTGTTGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:787248 original size:21 final size:21
Alignment explanation
Indices: 787218--787259 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
787208 TCACTTACTT
* *
787218 CAACACTGTTGGCAGTATCTC
1 CAACACTGTTGACAATATCTC
*
787239 CAACATTGTTGACAATATCTC
1 CAACACTGTTGACAATATCTC
787260 TAACGTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (21 bp):
CAACACTGTTGACAATATCTC
Found at i:793099 original size:63 final size:63
Alignment explanation
Indices: 792990--793112 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 63
792980 GAGTGATATT
* * **
792990 ATACACCTTAGTGAAATGTTGCTTTACATCTAAACGGATTTCCATGGAATCTTCAACAAGGTC
1 ATACAACTCAGTGAAATGTTGCTTTACATCTAAACAAATTTCCATGGAATCTTCAACAAGGTC
* * * *
793053 ATACAACTCAGTGAAATGTTGTTTTACATCTGAACAAATTTTCATGGGATCTTCAACAAG
1 ATACAACTCAGTGAAATGTTGCTTTACATCTAAACAAATTTCCATGGAATCTTCAACAAG
793113 AATGGATCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (63 bp):
ATACAACTCAGTGAAATGTTGCTTTACATCTAAACAAATTTCCATGGAATCTTCAACAAGGTC
Found at i:795656 original size:24 final size:23
Alignment explanation
Indices: 795624--795686 Score: 99
Period size: 24 Copynumber: 2.7 Consensus size: 23
795614 TGCCACATAG
795624 AAATGCACCAAAGTGTCGCGTATA
1 AAATGCACCAAAGTGTCGCGTA-A
795648 AAATGCACCAAAGTGTCGCGTAA
1 AAATGCACCAAAGTGTCGCGTAA
*
795671 AATATGAACCAAAGTG
1 AA-ATGCACCAAAGTG
795687 CCACATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
23 3 0.08
24 34 0.92
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (23 bp):
AAATGCACCAAAGTGTCGCGTAA
Found at i:795695 original size:24 final size:23
Alignment explanation
Indices: 795614--795699 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 23
795604 TAGTCGAAAC
*
795614 TGCCACATAGAAATGCACCAAAG
1 TGCCACATAAAAATGCACCAAAG
* * *
795637 TGTCGCGTATAAAATGCACCAAAG
1 TGCCACATA-AAAATGCACCAAAG
* * * *
795661 TGTCGCGTAAAATATGAACCAAAG
1 TGCCACATAAAA-ATGCACCAAAG
795685 TGCCACATAAAAATG
1 TGCCACATAAAAATG
795700 TCTGAAGGAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.23
24 41 0.77
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (23 bp):
TGCCACATAAAAATGCACCAAAG
Found at i:795720 original size:22 final size:22
Alignment explanation
Indices: 795695--795779 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 22
795685 TGCCACATAA
*
795695 AAATGTCTGAAGGACCACGTAG
1 AAATGTCCGAAGGACCACGTAG
* *
795717 AAATATCCCGAATGACCACGTAG
1 AAATGT-CCGAAGGACCACGTAG
* *
795740 AATATGTCCCAAAGGACC-CATAG
1 AA-ATGT-CCGAAGGACCACGTAG
* *
795763 AATTATCCTGAAGGACC
1 AAATGTCC-GAAGGACC
795780 GCATAGAACC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.04
22 14 0.28
23 22 0.44
24 12 0.24
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (22 bp):
AAATGTCCGAAGGACCACGTAG
Found at i:795757 original size:24 final size:24
Alignment explanation
Indices: 795704--795779 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 24
795694 AAAATGTCTG
*
795704 AAGGACCACGTAGAA-ATATCCCG
1 AAGGACCACGTAGAATATATCCCA
* *
795727 AATGACCACGTAGAATATGTCCCA
1 AAGGACCACGTAGAATATATCCCA
* **
795751 AAGGACC-CATAGAAT-TATCCTG
1 AAGGACCACGTAGAATATATCCCA
795773 AAGGACC
1 AAGGACC
795780 GCATAGAACC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 11 0.25
23 21 0.48
24 12 0.27
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (24 bp):
AAGGACCACGTAGAATATATCCCA
Found at i:795939 original size:15 final size:15
Alignment explanation
Indices: 795921--796003 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
795911 ATAGGGTATC
795921 TTCACGTAGAACATT
1 TTCACGTAGAACATT
* *
795936 TTCACTTAGCACATT
1 TTCACGTAGAACATT
* ** * *
795951 ATCATATATAATCCTT
1 TTCACGTAGAA-CATT
* *
795967 TTAAGGTAGAACATTT
1 TTCACGTAGAACA-TT
*
795983 TTCACGTAGAACAGT
1 TTCACGTAGAACATT
795998 TTCACG
1 TTCACG
796004 AAACTTTATC
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
15 27 0.55
16 22 0.45
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (15 bp):
TTCACGTAGAACATT
Found at i:799699 original size:21 final size:21
Alignment explanation
Indices: 799660--799700 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
799650 CCATGGACAA
* * *
799660 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTACACCAATGCAT
799681 TGCTACAGTACACCAATGCA
1 TGCTACAGTACACCAATGCA
799701 CTAAAATTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (21 bp):
TGCTACAGTACACCAATGCAT
Found at i:802282 original size:2 final size:2
Alignment explanation
Indices: 802275--802326 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
802265 ATCTATTAAA
802275 AT AT AT AT AT AT 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 AT AT AT AT AT AT
802317 AT AT AT AT AT
1 AT AT AT AT AT
802327 CAATTTTCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:810285 original size:22 final size:22
Alignment explanation
Indices: 810254--810325 Score: 58
Period size: 28 Copynumber: 3.1 Consensus size: 22
810244 TTATTTATCA
810254 TAAAAT-TTAATATTATTATTT
1 TAAAATATTAATATTATTATTT
810275 TAAAATATTAAAATAATTTATTTATTAT
1 TAAAATATT--AAT-A-TTA-TTATT-T
* *
810303 TAAAATATT-ATTTTATAATTT
1 TAAAATATTAATATTATTATTT
810324 TA
1 TA
810326 TTAATAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
21 9 0.21
22 6 0.14
23 3 0.07
24 3 0.07
25 3 0.07
26 3 0.07
27 5 0.12
28 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAAAATATTAATATTATTATTT
Found at i:810437 original size:23 final size:23
Alignment explanation
Indices: 810408--810452 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
810398 AGTGTTATAT
810408 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
810431 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
810453 AATATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:810470 original size:17 final size:17
Alignment explanation
Indices: 810442--810485 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
810432 ATATTTTAAA
810442 TATATT-TATTAAATAT
1 TATATTATATTAAATAT
810458 TATATTATATTAAATAT
1 TATATTATATTAAATAT
* *
810475 AATAATATATT
1 TATATTATATT
810486 CCTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATTATATTAAATAT
Found at i:810473 original size:30 final size:30
Alignment explanation
Indices: 810361--810475 Score: 80
Period size: 30 Copynumber: 3.8 Consensus size: 30
810351 ATTGAAATAA
810361 AAATATTA-TAATTATATTAAT-TATTTATT
1 AAATATTAGT-ATTATATTAATATATTTATT
* * *
810390 AAAGTAATAGTGTTATATT-ATAT-TTTA-A
1 AAA-TATTAGTATTATATTAATATATTTATT
* *
810418 AAATATTAATTAGTATATTTTAAATATATTTATT
1 AAATATT-AGTA-T-TATATT-AATATATTTATT
810452 AAATATTA-TATTATATTAAATATA
1 AAATATTAGTATTATATT-AATATA
810476 ATAATATATT
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
27 3 0.04
28 5 0.07
29 10 0.15
30 29 0.43
31 2 0.03
32 6 0.09
33 5 0.07
34 7 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
AAATATTAGTATTATATTAATATATTTATT
Found at i:810583 original size:24 final size:24
Alignment explanation
Indices: 810551--810660 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
810541 TATTAATAGT
*
810551 ATATTATATATTATTAAAATAAAA
1 ATATAATATATTATTAAAATAAAA
* **
810575 ATATAATATCTTATTATTATAATATA
1 ATATAATATATTATTAAAATAA-A-A
* *
810601 AT-TGATATTTTATTATAATATTAAAA
1 ATATAATATATTATTA-AA-A-TAAAA
810627 ATATAATAGTGTATTATTAAAAATATAAA
1 ATATAATA---TATTATT-AAAATA-AAA
810656 ATATA
1 ATATA
810661 TTTTAAATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
24 18 0.28
25 12 0.18
26 6 0.09
27 6 0.09
28 5 0.08
29 9 0.14
30 8 0.12
31 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.45
Consensus pattern (24 bp):
ATATAATATATTATTAAAATAAAA
Found at i:810630 original size:22 final size:22
Alignment explanation
Indices: 810588--810630 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
810578 TAATATCTTA
**
810588 TTATTATAATATAATTGATATT
1 TTATTATAATATAATAAATATT
810610 TTATTATAATATTAA-AAATAT
1 TTATTATAATA-TAATAAATAT
810631 AATAGTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTATAATATAATAAATATT
Found at i:810690 original size:24 final size:22
Alignment explanation
Indices: 810652--810717 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 22
810642 ATTAAAAATA
*
810652 TAAAATATATT-TTAAATATTT
1 TAAAATATTTTATTAAATATTT
*
810673 TAATAATATTTTGATTAAATGATAT
1 TAA-AATATTTT-ATTAAAT-ATTT
810698 TAAAATATTTTATT-AATATT
1 TAAAATATTTTATTAAATATT
810718 AAATTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 5 0.13
22 10 0.26
23 3 0.08
24 14 0.37
25 6 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TAAAATATTTTATTAAATATTT
Found at i:811188 original size:33 final size:32
Alignment explanation
Indices: 811151--811217 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
811141 CATTAAACCT
*
811151 TTTTAT-ATTTTAATTTTGTAAAAAAAATATAAA
1 TTTTATAATTTAAATTTT-T-AAAAAAATATAAA
811184 TTTTATGAATTTAAATTTTTAAAAAAATATAAA
1 TTTTAT-AATTTAAATTTTTAAAAAAATATAAA
811217 T
1 T
811218 ATTTTCCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 20 0.65
34 1 0.03
35 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTTATAATTTAAATTTTTAAAAAAATATAAA
Found at i:812615 original size:19 final size:21
Alignment explanation
Indices: 812580--812618 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
812570 GCATACAAAT
812580 TTAAACTTGTGAATTTTTGAG
1 TTAAACTTGTGAATTTTTGAG
812601 TTAAACTT-T-AATTTTTGA
1 TTAAACTTGTGAATTTTTGA
812619 TTTCAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (21 bp):
TTAAACTTGTGAATTTTTGAG
Found at i:813962 original size:25 final size:24
Alignment explanation
Indices: 813928--813975 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
813918 CATATAGACT
813928 TATAAAATTTTATTT-TAAATAAAAA
1 TATAAAA-TTTATTTATAAA-AAAAA
*
813953 TATATAATTTATTTATAAAAAAA
1 TATAAAATTTATTTATAAAAAAA
813976 CTCAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAAATTTATTTATAAAAAAAA
Found at i:816198 original size:31 final size:30
Alignment explanation
Indices: 816147--816224 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
816137 AATATATGGT
* * * *
816147 TTTTTTAAAATATTTCGAAAATATAATATAA
1 TTTTTGAAAACATTTTGAAAATACAATAT-A
*
816178 TTTTTGAAAACATTTTGAAAATACATTATA
1 TTTTTGAAAACATTTTGAAAATACAATATA
*
816208 TTGTTTGAAAACTTTTT
1 TT-TTTGAAAACATTTT
816225 TTTAAGTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 3 0.08
31 37 0.93
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTTTGAAAACATTTTGAAAATACAATATA
Found at i:816336 original size:34 final size:34
Alignment explanation
Indices: 816270--816455 Score: 247
Period size: 34 Copynumber: 5.5 Consensus size: 34
816260 TTGAAAAACG
*
816270 TATATA-TTTTGAAAATTAG-TTCT-AAATATAT
1 TATATAGTTTTGAAAATTAGTTTTTAAAATATAT
*
816301 TATATAATTTTGAAAATTAGTTTTTAAAATATAT
1 TATATAGTTTTGAAAATTAGTTTTTAAAATATAT
*
816335 TATATAGTTTTGAAAATTAGTTTTAAAAATATAT
1 TATATAGTTTTGAAAATTAGTTTTTAAAATATAT
*
816369 TATATAGTTTTGAAAATTAGTTTTTAAAAAATAT
1 TATATAGTTTTGAAAATTAGTTTTTAAAATATAT
*
816403 TATATAGTTTTGAAAA-TATTTTTTTAAAAGTATATAT
1 TATATAGTTTTGAAAATTA-GTTTTT-AAA--ATATAT
*
816440 TGTATAGTTTT-AAAAT
1 TATATAGTTTTGAAAAT
816456 GTTTTAATTA
Statistics
Matches: 139, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
31 6 0.04
32 13 0.09
33 5 0.04
34 93 0.67
35 3 0.02
36 4 0.03
37 15 0.11
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (34 bp):
TATATAGTTTTGAAAATTAGTTTTTAAAATATAT
Found at i:816475 original size:8 final size:8
Alignment explanation
Indices: 816462--816503 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
816452 AAATGTTTTA
816462 ATTAATTT
1 ATTAATTT
816470 ATTAATTT
1 ATTAATTT
**
816478 ATCCATTT
1 ATTAATTT
*
816486 ATTTATTT
1 ATTAATTT
816494 ATT-ATTT
1 ATTAATTT
816501 ATT
1 ATT
816504 TTCATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (8 bp):
ATTAATTT
Found at i:816685 original size:16 final size:15
Alignment explanation
Indices: 816664--816694 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
816654 GGCCGGCCGG
816664 CATCCCGGGACTGACC
1 CATCCCGGGA-TGACC
816680 CATCCCGGGATGACC
1 CATCCCGGGATGACC
816695 GGTCATACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (15 bp):
CATCCCGGGATGACC
Found at i:823207 original size:80 final size:80
Alignment explanation
Indices: 822889--823612 Score: 781
Period size: 80 Copynumber: 8.9 Consensus size: 80
822879 GTTCGACTAC
* * *
822889 GCTCAAAGGCATATCATTTGCAGAATA--TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
1 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
**
822952 GTTCGACTACGTTCA
66 GTTCGACTACACTCA
* * * *
822967 GCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCAACTAAAGACCC
1 GC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGC--C-AAAGACCC
**
823032 TTAAGTTCGA-TACACTCA
62 TCGAGTTCGACTACACTCA
* * * * * * * * * *
823050 GCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
1 GCTCCAA-GGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCC
* *
823115 TTGAGTTCGACTACGCTCA
62 TCGAGTTCGACTACACTCA
*
823134 GCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
1 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
**
823199 GTTCGACTACGTTCA
66 GTTCGACTACACTCA
* * * *
823214 GCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACC
1 GC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACC
** *
823279 CTTAAGTTCGATTACACTCA
61 CTCGAGTTCGACTACACTCA
* * * * * * * * *
823299 GCTTCAAGGGCATATTATTTACAGCATAGCTCAAGGCCAGAAGGGCTATCTGCCACCAAGACCTT
1 GCTCCAA-GGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCA--AAGACCCT
823364 CGAGTTCGACTACACTCA
63 CGAGTTCGACTACACTCA
* * *
823382 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAA
1 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
823447 GTTCGACTACACTCA
66 GTTCGACTACACTCA
* * *
823462 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAA
1 GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
*
823527 GTTCGATTACACTCA
66 GTTCGACTACACTCA
* * * * *
823542 GCTTCGAGGGCACATCATTTGCAGCATAGC-TAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCG
1 GC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCG
823606 AGTTCGA
65 AGTTCGA
823613 TTATATCAAC
Statistics
Matches: 548, Mismatches: 78, Indels: 38
0.83 0.12 0.06
Matches are distributed among these distances:
78 2 0.00
79 22 0.04
80 168 0.31
81 90 0.16
82 44 0.08
83 127 0.23
84 35 0.06
85 59 0.11
86 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (80 bp):
GCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
GTTCGACTACACTCA
Found at i:823252 original size:247 final size:248
Alignment explanation
Indices: 822823--823612 Score: 1182
Period size: 247 Copynumber: 3.2 Consensus size: 248
822813 TTTTAAACAA
* *
822823 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTA
1 ATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCACCAAAGACCTTCGAGTTCGACTA
*
822888 CGCTCA-----AAGGCATATCATTTGCAGAATA--TTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
822946 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
131 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
823011 GTTATCTGCAACTAAAGACCCTTAAGTTCGA-TACACTCAGCTTCAAGGGCAT
196 GTTATCTGCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCAT
* *
823063 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTA
1 ATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCACCAAAGACCTTCGAGTTCGACTA
823128 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
823193 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
131 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
823258 GTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCAT
196 GTTATCTG-CAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCAT
* * * *
823312 ATTATTTACAGCATAGCTCAAGGCCAGAAGGGCTATCTGCCACC-AAGACCTTCGAGTTCGACTA
1 ATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCACCAAAGACCTTCGAGTTCGACTA
* * *
823376 CACTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGAC
66 CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* * ** * * * *
823441 CCCCAAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGA
131 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
* ** * *
823505 GCTATCTGC--C-AAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCAC
196 GTTATCTGCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCAT
* * * * *
823555 ATCATTTGCAGCATAGCT-AAGTCGAGAAGGGCTATCTG---CTAAAGACCTTCGAGTTCGA
1 ATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCACCAAAGACCTTCGAGTTCGA
823613 TTATATCAAC
Statistics
Matches: 512, Mismatches: 28, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
239 1 0.00
240 88 0.17
242 18 0.04
243 52 0.10
244 1 0.00
245 21 0.04
246 1 0.00
247 147 0.29
248 123 0.24
249 60 0.12
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (248 bp):
ATCATTTACAGCATAACTCAAGGCTAGAAGGGCTATCTGTCACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGG
GTTATCTGCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCAT
Found at i:823464 original size:328 final size:327
Alignment explanation
Indices: 822894--823670 Score: 858
Period size: 328 Copynumber: 2.4 Consensus size: 327
822884 ACTACGCTCA
* *
822894 AAGGCATATCATTTGCAGAAT-A-TTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTC
1 AAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCCAAAGACCCTCAAGTTC
** * * * * *
822956 GACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCA
66 GACTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGCTATCTGCA
* *
823021 ACTAAAGACCCTTAAGTTCGATACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGG
131 ACTAAAGACCCTTAAGTTCGATACACTCAGCTCCAAGGGCACATCATTTACAGCATAACTCAAGG
* * * **** *
823086 CTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
196 CGAGAAGAGCTATCTG--ACCAAAGACCCCCAAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* * * **
823151 TTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGC
259 TTGCAGAATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGC
823216 TTCG
324 TTCG
* * * *
823220 AAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAG
1 AAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCC--C-AAAGACCCTCAAG
* * * * *
823285 TTCGATTACACTCAGCTTC-AAGGGCATATTATTTACAGCATAGCTCAAGGCCAGAAGGGCTATC
63 TTCGACTACACTCAGCTTCGAA-GGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGCTATC
* * * * * *
823349 TGCCAC-CAAGA-CCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGTATAGC
127 TGCAACTAAAGACCCTT-AAGTTCGA-TACACTCAGCTCCAAGGGCACATCATTTACAGCATAAC
* *
823411 TTAAGTCGAGAAGAGCTATCTG-CCAAAGACCCCCAAGTTCGACTACACTCAGCTCCAAGGCACA
190 TCAAGGCGAGAAGAGCTATCTGACCAAAGACCCCCAAGTTCGACTACACTCAGCTCCAAGGCACA
* *
823475 TCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGATTACACT
255 TCATTTGCAGAATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGACTACACT
823540 CAGCTTCG
320 CAGCTTCG
* * * * * *
823548 AGGGCACATCATTTGCAGCATAGC-TAAGTCGAGAAGGGCTATCTG-CTAAAGACCTTCGAGTTC
1 AAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCCAAAGACCCTCAAGTTC
* * * * * * * * *
823611 GATTATA-TCAACTTAG-AGGCAAATCAAGCTTACAGAATAGCCCAAGGCAAGAAGGGCTAT
66 GACTACACTCAGCTTCGAAGGCACATC-A-TTTACAGCATAACTCAAGGCAAGAAGGGCTAT
823671 TGTCAATAAA
Statistics
Matches: 378, Mismatches: 61, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
321 6 0.02
322 8 0.02
323 47 0.12
326 20 0.05
327 20 0.05
328 144 0.38
329 1 0.00
330 4 0.01
331 49 0.13
332 79 0.21
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (327 bp):
AAGGCACATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCCAAAGACCCTCAAGTTC
GACTACACTCAGCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGGGCTATCTGCA
ACTAAAGACCCTTAAGTTCGATACACTCAGCTCCAAGGGCACATCATTTACAGCATAACTCAAGG
CGAGAAGAGCTATCTGACCAAAGACCCCCAAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
GCAGAATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCAAGTTCGACTACACTCAGCTT
CG
Found at i:824318 original size:36 final size:36
Alignment explanation
Indices: 824220--824403 Score: 136
Period size: 36 Copynumber: 5.3 Consensus size: 36
824210 TCCATTTTTT
* *
824220 ATATATAA--TTTGAAATCA-TTTTGAAATTATATA
1 ATATATAATTTTTGAAAACATTTTTGAAAATATATA
** ** *
824253 ATATATGGTTTTTTTAAA-ATATTTCGAAAATATATA
1 ATATATAATTTTTGAAAACAT-TTTTGAAAATATATA
*
824289 ATATATAATTTTTGAAAACATTTTTGAAAATACAT-
1 ATATATAATTTTTGAAAACATTTTTGAAAATATATA
* * *
824324 AT-TAT-ATTGTTTGAAAACTTTTTTTAAGTATATATA
1 ATATATAATT-TTTGAAAACATTTTTGAA-AATATATA
** * *
824360 ATATATAGCTTTTAAAAACA-TTTTGAAAA-ATGT-
1 ATATATAATTTTTGAAAACATTTTTGAAAATATATA
824393 ATATATAATTT
1 ATATATAATTT
824404 GAAAATTAGT
Statistics
Matches: 115, Mismatches: 26, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
33 18 0.16
34 23 0.20
35 13 0.11
36 47 0.41
37 13 0.11
38 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATAATTTTTGAAAACATTTTTGAAAATATATA
Found at i:824443 original size:33 final size:34
Alignment explanation
Indices: 824280--824582 Score: 207
Period size: 33 Copynumber: 8.8 Consensus size: 34
824270 AATATTTCGA
*
824280 AAATATATAATATATAATTTTTGAAAA-CA-TTTTT
1 AAATATAT-ATATATAA-TTTTGAAAATTAGTTTTT
* *
824314 GAAA-ATACATATTATATTGTTTGAAAACTT--TTTTT
1 -AAATATATATA-TATAAT-TTTGAAAA-TTAGTTTTT
* ** *
824349 AAGTATATATAATATATAGCTTTT-AAAAACA-TTTTG
1 AA--ATATAT-ATATATA-ATTTTGAAAATTAGTTTTT
* * *
824385 AAAAATGTATATATAA-TTTGAAAATTAGTTTCT
1 AAATATATATATATAATTTTGAAAATTAGTTTTT
824418 AAATAT-TATATATAATTTTGAAAATTAGTTTTT
1 AAATATATATATATAATTTTGAAAATTAGTTTTT
824451 AAAATATATATATTATATAGTTTTGAAAATTAGTTTTT
1 -AAATATATATA-TATA-A-TTTTGAAAATTAGTTTTT
* *
824489 AAA-A-ATATTTATAGTTTTGAAAA-TAGTTTTT
1 AAATATATATATATAATTTTGAAAATTAGTTTTT
* * *
824520 AAAAATATATATATAGTTTTGAAAATTATTTTTTT
1 AAATATATATATATAATTTTGAAAATTA-GTTTTT
* * *
824555 AAAAGTATATATGTATAGTTTTAAAAAT
1 -AAA-TATATATATATAATTTTGAAAAT
824583 GTTTTAATTA
Statistics
Matches: 220, Mismatches: 24, Indels: 46
0.76 0.08 0.16
Matches are distributed among these distances:
31 14 0.06
32 24 0.11
33 53 0.24
34 33 0.15
35 21 0.10
36 19 0.09
37 34 0.15
38 22 0.10
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (34 bp):
AAATATATATATATAATTTTGAAAATTAGTTTTT
Found at i:824511 original size:70 final size:66
Alignment explanation
Indices: 824380--824582 Score: 221
Period size: 70 Copynumber: 3.0 Consensus size: 66
824370 TTTAAAAACA
* * * * * * *
824380 TTTTGAAAAATGTATATATA-ATTTGAAAATTAGTTTCTAAATATTATATATAATTTTGAAAATT
1 TTTTTAAAAATATATATATAGTTTTGAAAATTAGTTTTTAAA-AATATTTATAGTTTTGAAAATT
824444 AG
65 AG
824446 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATTTATAGTTTTGAAA
1 TTTTT-AAA-A-ATATA-TATATAGTTTTGAAAATTAGTTTTTAAAAATATTTATAGTTTTGAAA
824511 A-TAG
62 ATTAG
* *
824515 TTTTTAAAAATATATATATAGTTTTGAAAATTATTTTTTTAAAAGTATATATGTATAGTTTTAAA
1 TTTTTAAAAATATATATATAGTTTTGAAAATTA-GTTTTTAAAA--ATAT-T-TATAGTTTTGAA
824580 AAT
61 AAT
824583 GTTTTAATTA
Statistics
Matches: 117, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
65 19 0.16
66 18 0.15
67 4 0.03
68 8 0.07
69 13 0.11
70 36 0.31
71 19 0.16
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (66 bp):
TTTTTAAAAATATATATATAGTTTTGAAAATTAGTTTTTAAAAATATTTATAGTTTTGAAAATTA
G
Found at i:824618 original size:4 final size:4
Alignment explanation
Indices: 824593--824651 Score: 75
Period size: 4 Copynumber: 14.8 Consensus size: 4
824583 GTTTTAATTA
* **
824593 ATTT ATTA ATTT ATCC ATTT ATTT ATTT ATTT ATTT ATTT -TTT CATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT -ATTT
824641 ATTT ATTT ATT
1 ATTT ATTT ATT
824652 ATGTTTCAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
3 3 0.06
4 41 0.87
5 3 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:824819 original size:16 final size:15
Alignment explanation
Indices: 824798--824827 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
824788 GGCCGGCCGG
824798 CATCCCGGGACTGACC
1 CATCCCGGGA-TGACC
824814 CATCCCGGGATGAC
1 CATCCCGGGATGAC
824828 GGTCATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
CATCCCGGGATGACC
Found at i:825971 original size:22 final size:22
Alignment explanation
Indices: 825940--825985 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
825930 TTTATTATTA
825940 TTGTTATTTTCTCCTT-TTTGAT
1 TTGTTATTTTC-CCTTATTTGAT
* *
825962 TTGTTTTTTTCCTTTATTTGAT
1 TTGTTATTTTCCCTTATTTGAT
825984 TT
1 TT
825986 ATTTAAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.72
Consensus pattern (22 bp):
TTGTTATTTTCCCTTATTTGAT
Found at i:835312 original size:25 final size:25
Alignment explanation
Indices: 835278--835325 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
835268 CACTCATTTA
*
835278 TAAAATAATATTTTATAAGAAATAGT
1 TAAAATAATATTTTA-AAAAAATAGT
835304 TAAAA-AATATTTTAAAAAAATA
1 TAAAATAATATTTTAAAAAAATA
835326 AATAATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAATAATATTTTAAAAAAATAGT
Found at i:835571 original size:42 final size:42
Alignment explanation
Indices: 835524--835632 Score: 209
Period size: 42 Copynumber: 2.6 Consensus size: 42
835514 TAATTCAAAG
835524 ATTACAATTATGTATCAATACGAAATTTATACAATTAATTTT
1 ATTACAATTATGTATCAATACGAAATTTATACAATTAATTTT
835566 ATTACAATTATGTATCAATACGAAATTTATACAATTAATTTT
1 ATTACAATTATGTATCAATACGAAATTTATACAATTAATTTT
*
835608 ATTACAATTATGTATCAATAAGAAA
1 ATTACAATTATGTATCAATACGAAA
835633 CTAATTCAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (42 bp):
ATTACAATTATGTATCAATACGAAATTTATACAATTAATTTT
Found at i:835573 original size:15 final size:14
Alignment explanation
Indices: 835549--835617 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
835539 CAATACGAAA
835549 TTTATACAATTAAT
1 TTTATACAATTAAT
835563 TTTATTACAATT-A-
1 TTTA-TACAATTAAT
* * *
835576 TGTAT-CAATACGAAA
1 TTTATACAAT--TAAT
835591 TTTATACAATTAAT
1 TTTATACAATTAAT
835605 TTTATTACAATTA
1 TTTA-TACAATTA
835618 TGTATCAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
11 4 0.09
12 1 0.02
13 3 0.07
14 12 0.28
15 19 0.44
16 4 0.09
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (14 bp):
TTTATACAATTAAT
Found at i:837531 original size:30 final size:30
Alignment explanation
Indices: 837495--837558 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
837485 GGCGTGAAAT
*
837495 ATAAACACGTCCATCTGAATCCATGCACTA
1 ATAAACACGTCCATCCGAATCCATGCACTA
*
837525 ATAAACACGTCCATCCGAATCTATGCACTA
1 ATAAACACGTCCATCCGAATCCATGCACTA
837555 ATAA
1 ATAA
837559 CCTTTATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.23
Consensus pattern (30 bp):
ATAAACACGTCCATCCGAATCCATGCACTA
Found at i:855193 original size:33 final size:32
Alignment explanation
Indices: 855149--855383 Score: 154
Period size: 33 Copynumber: 6.8 Consensus size: 32
855139 CTTTAAAAAT
*
855149 TTCGGGTTCGGGTTGGATTTTTTTAAGTGTGATA
1 TTCGGG-TCGGGTCGG-TTTTTTTAAGTGTGATA
* * * **
855183 TTCGGGTC-GG--GGTTTTTTAAAAAATTTCG-GG
1 TTCGGGTCGGGTCGGTTTTTT--TAAGTGT-GATA
* *
855214 TTCGGGTCGGGTCAGGTTTTTTAAAGTTTGATA
1 TTCGGGTCGGGTC-GGTTTTTTTAAGTGTGATA
*
855247 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
*
855279 TTCGGGTCGGGTTCAAGTTGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGG-TC-----GGTTTTTTTAAGTGTGATA
* *
855317 TTCGGGTCGAGTTCTGGTCGGGTTTTTTTAAGTATAATA
1 TTCGGGTC--G----GGTC-GGTTTTTTTAAGTGTGATA
855356 TTCGGGTCGGGTCGGGTTTTTTTAAGTG
1 TTCGGGTCGGGTC-GGTTTTTTTAAGTG
855384 AGGGTGAAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 41
0.74 0.07 0.18
Matches are distributed among these distances:
29 6 0.04
30 2 0.01
31 12 0.07
32 33 0.20
33 41 0.25
34 6 0.04
35 8 0.05
37 1 0.01
38 27 0.16
39 24 0.15
40 1 0.01
43 2 0.01
44 2 0.01
ACGTcount: A:0.15, C:0.09, G:0.33, T:0.43
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGTTTTTTTAAGTGTGATA
Found at i:855248 original size:64 final size:60
Alignment explanation
Indices: 855116--855257 Score: 160
Period size: 64 Copynumber: 2.3 Consensus size: 60
855106 TCATCAATCT
* * ** * * *
855116 TTTGGTATTCGGGTTGGATTTTTCTTTAAAAATTTCGGGTTCGGGTTGGATTTTTTTAAG
1 TTTGATATTCGGGTCGGGGTTTTCTTAAAAAATTTCGGGTTCGGGTGGGATTTTTTAAAG
*
855176 TGTGATATTCGGGTCGGGGTTTT-TTAAAAAATTTCGGGTTCGGGTCGGGTCAGGTTTTTTAAAG
1 TTTGATATTCGGGTCGGGGTTTTCTTAAAAAATTTCGGGTTCGGGT-GGG--A--TTTTTTAAAG
855240 TTTGATATTCGGGTCGGG
1 TTTGATATTCGGGTCGGG
855258 TCGGGTTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 21 0.31
60 20 0.29
62 1 0.01
64 26 0.38
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (60 bp):
TTTGATATTCGGGTCGGGGTTTTCTTAAAAAATTTCGGGTTCGGGTGGGATTTTTTAAAG
Found at i:855263 original size:38 final size:37
Alignment explanation
Indices: 855208--855372 Score: 169
Period size: 38 Copynumber: 4.5 Consensus size: 37
855198 TTTAAAAAAT
* *
855208 TTCGGGTTCGGGTCGGGTCAGGTTTTTTAAAGTTTGATA
1 TTCGGG-TCGGGTCGGGTCGGGTTTTTT-AAGTGTGATA
855247 -T----TCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
** *
855279 TTCGGGTCGGGTTCAAGTTGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGG-TCGGGTCGGGTTTTTTAAGTGTGATA
* * * *
855317 TTCGGGTCGAGTTCTGGTCGGGTTTTTTTAAGTATAATA
1 TTCGGGTCG-GGTCGGGTCGGG-TTTTTTAAGTGTGATA
855356 TTCGGGTCGGGTCGGGT
1 TTCGGGTCGGGTCGGGT
855373 TTTTTTAAGT
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
32 9 0.09
33 21 0.20
37 5 0.05
38 46 0.44
39 24 0.23
ACGTcount: A:0.14, C:0.10, G:0.35, T:0.41
Consensus pattern (37 bp):
TTCGGGTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:855672 original size:204 final size:206
Alignment explanation
Indices: 855362--855744 Score: 716
Period size: 204 Copynumber: 1.9 Consensus size: 206
855352 AATATTCGGG
855362 TCGGGTCGGGTTTTTTTAAGTGAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTT
1 TCGGGTCGGGTTTTTTTAAGTGAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTT
855427 TACCTTATATATTTAAAAATAATTACAATAATACCCCTCTATAAATAATTTTTTTCAATTAAGTC
66 TACCTTATATATTTAAAAATAATTACAATAATACCCCTCTATAAATAATTTTTTTCAATTAAGTC
855492 ACTGCTTTTATTAAATAAAAATAA-TTTTTT-TTATTTCGGGTCAGGTCGGGTCGGGTTTTTTTT
131 ACTGCTTTTATTAAATAAAAATAATTTTTTTATTATTTCGGGTCAGGTCGGGTCGGGTTTTTTTT
855555 AAGTGTGATAT
196 AAGTGTGATAT
855566 TCGGGTCGGGTTTTTTTAAGTGAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTT
1 TCGGGTCGGGTTTTTTTAAGTGAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTT
**
855631 TACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATAAATAATTTTTTTCAATTAAGTC
66 TACCTTATATATTTAAAAATAATTACAATAATACCCCTCTATAAATAATTTTTTTCAATTAAGTC
* *
855696 ACTGCTTTTATTAAATAAAATTAATTTTTTTATTATTTCGGGTCGGGTC
131 ACTGCTTTTATTAAATAAAAATAATTTTTTTATTATTTCGGGTCAGGTC
855745 AGATTTTAAA
Statistics
Matches: 173, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
204 151 0.87
205 6 0.03
206 16 0.09
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (206 bp):
TCGGGTCGGGTTTTTTTAAGTGAGGGTGAAAAATACCCGACCCGACCCGAAAAAATATATAATTT
TACCTTATATATTTAAAAATAATTACAATAATACCCCTCTATAAATAATTTTTTTCAATTAAGTC
ACTGCTTTTATTAAATAAAAATAATTTTTTTATTATTTCGGGTCAGGTCGGGTCGGGTTTTTTTT
AAGTGTGATAT
Found at i:868087 original size:14 final size:14
Alignment explanation
Indices: 868068--868095 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
868058 CGGCTGTCGC
868068 GGGCGCTATTGCGG
1 GGGCGCTATTGCGG
868082 GGGCGCTATTGCGG
1 GGGCGCTATTGCGG
868096 CTGTCGCGGG
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:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GGGCGCTATTGCGG
Found at i:871025 original size:31 final size:29
Alignment explanation
Indices: 870956--871026 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
870946 AAAAATTATT
870956 TTTATAATTTTATTAATAAAAATATTAAAA
1 TTTAT-ATTTTATTAATAAAAATATTAAAA
870986 TTGGTATATTTTATTGAAATAAAAATATTATAAA
1 TT--TATATTTTATT--AATAAAAATATTA-AAA
871020 -TTATATT
1 TTTATATT
871027 AATAATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
30 2 0.06
31 14 0.39
32 3 0.08
33 14 0.39
34 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (29 bp):
TTTATATTTTATTAATAAAAATATTAAAA
Found at i:871196 original size:27 final size:26
Alignment explanation
Indices: 871129--871200 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
871119 ATATTACTAT
871129 TAAATATATAAATAATATTATTCATTA
1 TAAATA-ATAAATAATATTATTCATTA
* * *
871156 TTAATAATTTAATAATATTATTTA-TA
1 TAAATAA-TAAATAATATTATTCATTA
871182 TGAAATTAATAAATAATAT
1 T-AAA-TAATAAATAATAT
871201 AAAATTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 4 0.11
27 30 0.81
28 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (26 bp):
TAAATAATAAATAATATTATTCATTA
Found at i:871251 original size:53 final size:52
Alignment explanation
Indices: 871153--871253 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 52
871143 ATATTATTCA
* *
871153 TTATTAATAATTTAATAATATTATTTATATGAAATTAATAAATAATATAAAAT
1 TTATTAATAATTTAATAATATTATTAAAATGAAATTAAT-AATAATATAAAAT
*
871206 TTATTAATAATTTATTATATATTATTAAAAT-ATAATATAAT-ATAATAT
1 TTATTAATAATTTAATA-ATATTATTAAAATGA-AAT-TAATAATAATAT
871254 CTTATATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
53 24 0.57
54 14 0.33
55 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (52 bp):
TTATTAATAATTTAATAATATTATTAAAATGAAATTAATAATAATATAAAAT
Found at i:880317 original size:26 final size:26
Alignment explanation
Indices: 880281--880335 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
880271 ACCGAAATTC
* * *
880281 TAATACACATAAGGTCGTGTCCACCA
1 TAATACACATAAGATCATGCCCACCA
880307 TAATACACATAAGATCATGCCCACCA
1 TAATACACATAAGATCATGCCCACCA
880333 TAA
1 TAA
880336 GTGTCATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (26 bp):
TAATACACATAAGATCATGCCCACCA
Found at i:882761 original size:24 final size:24
Alignment explanation
Indices: 882734--882809 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
882724 TATATCAAAA
882734 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* * *
882758 ATCATATCAAACTCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
882782 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
882806 ATCA
1 ATCA
882810 GATCAGAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:882810 original size:24 final size:24
Alignment explanation
Indices: 882751--882866 Score: 164
Period size: 24 Copynumber: 4.8 Consensus size: 24
882741 CATAAATCAG
* *
882751 GTCAAGTATCATATCA-AACTCCAG
1 GTCAAGTATCAGATCAGAA-TCCAT
*
882775 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
882799 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
882823 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
882847 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
882867 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 2 0.02
24 78 0.93
25 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:882882 original size:48 final size:48
Alignment explanation
Indices: 882782--882884 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 48
882772 CAGGTCAAGT
** *
882782 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
*
882830 ATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAT-TCAAATC-GAAA
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCT-AAATCAG-AA
882878 ATCAGAT
1 ATCAGAT
882885 AAAATATTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
47 2 0.04
48 47 0.96
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
Found at i:885322 original size:7 final size:7
Alignment explanation
Indices: 885310--885349 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
885300 TGGTCAACAC
885310 CGGTCAA
1 CGGTCAA
885317 CGGTCAA
1 CGGTCAA
885324 CGGGTCAA
1 C-GGTCAA
*
885332 CGATCAA
1 CGGTCAA
885339 CGGGTCAA
1 C-GGTCAA
885347 CGG
1 CGG
885350 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:885331 original size:8 final size:8
Alignment explanation
Indices: 885311--885365 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
885301 GGTCAACACC
885311 GGTCAAC-
1 GGTCAACG
885318 GGTCAACG
1 GGTCAACG
885326 GGTCAAC-
1 GGTCAACG
*
885333 GATCAACG
1 GGTCAACG
885341 GGTCAACG
1 GGTCAACG
885349 GGT---CG
1 GGTCAACG
885354 GGTCAACG
1 GGTCAACG
885362 GGTC
1 GGTC
885366 GGATCAACAG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 23 0.56
ACGTcount: A:0.24, C:0.25, G:0.36, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:885331 original size:15 final size:15
Alignment explanation
Indices: 885311--885349 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
885301 GGTCAACACC
885311 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
885326 GGTCAACGATCAACG
1 GGTCAACGGTCAACG
885341 GGTCAACGG
1 GGTCAACGG
885350 GTCGGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.33, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:885357 original size:13 final size:13
Alignment explanation
Indices: 885339--885382 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
885329 CAACGATCAA
885339 CGGGTCAACGGGT
1 CGGGTCAACGGGT
885352 CGGGTCAACGGGT
1 CGGGTCAACGGGT
* *
885365 CGGATCAACAGGT
1 CGGGTCAACGGGT
885378 CGGGT
1 CGGGT
885383 TGGGTCAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.18, C:0.23, G:0.43, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:885390 original size:18 final size:18
Alignment explanation
Indices: 885360--885405 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
885350 GTCGGGTCAA
*
885360 CGGGTCGGATCAACAGGT
1 CGGGTCGGGTCAACAGGT
*
885378 CGGGTTGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
885396 CGGGTCGGGT
1 CGGGTCGGGT
885406 TATGACCGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.20, G:0.46, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:887545 original size:24 final size:24
Alignment explanation
Indices: 887518--887593 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
887508 TATATCAAAA
887518 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* * *
887542 ATCATATCAAACTCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
887566 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
887590 ATCA
1 ATCA
887594 GATCAGAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:887594 original size:24 final size:24
Alignment explanation
Indices: 887535--887674 Score: 144
Period size: 24 Copynumber: 5.8 Consensus size: 24
887525 CATAAATCAG
* *
887535 GTCAAGTATCATATCA-AACTCCAG
1 GTCAAGTATCAGATCAGAA-TCCAA
887559 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
* *
887583 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAA
* *
887607 GTC-AGATATCAGATCAGAATCTAT
1 GTCAAG-TATCAGATCAGAATCCAA
*
887631 GTC-CGATATCAGATCAGAATCCATA
1 GTCAAG-TATCAGATCAGAATCCA-A
*
887656 -TCAAGTATCTGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
887675 TCAAATCGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
23 2 0.02
24 98 0.95
25 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:887617 original size:48 final size:48
Alignment explanation
Indices: 887535--887674 Score: 160
Period size: 48 Copynumber: 2.9 Consensus size: 48
887525 CATAAATCAG
* *
887535 GTCAAGTATCATATCA-AACTCCAGGTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAA-TCCATGTCAAGTATCAGATCAGAATCCAA
* * *
887583 GTCAAGTATCAGATCAGAATCTATGTC-AGATATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCATGTCAAG-TATCAGATCAGAATCCAA
* * *
887631 GTC-CGATATCAGATCAGAATCCATATCAAGTATCTGATCAGAAT
1 GTCAAG-TATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAT
887675 TCAAATCGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
47 3 0.04
48 72 0.91
49 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCATGTCAAGTATCAGATCAGAATCCAA
Found at i:888677 original size:26 final size:26
Alignment explanation
Indices: 888648--888700 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
888638 TCAGTTTTAT
*
888648 TCCATTCATTTCAGAGCTCGAGGATA
1 TCCAATCATTTCAGAGCTCGAGGATA
* * *
888674 TCCAATCATTTCTGAGCTTGATGATA
1 TCCAATCATTTCAGAGCTCGAGGATA
888700 T
1 T
888701 TCTTGGGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (26 bp):
TCCAATCATTTCAGAGCTCGAGGATA
Found at i:901769 original size:16 final size:16
Alignment explanation
Indices: 901748--901793 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
901738 AATATTGAAA
901748 CTTGAACTCAAAAAGG
1 CTTGAACTCAAAAAGG
901764 CTTGAACTCAAAAAGG
1 CTTGAACTCAAAAAGG
901780 CTTGAACTCAAAAA
1 CTTGAACTCAAAAA
901794 AAAATTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (16 bp):
CTTGAACTCAAAAAGG
Found at i:901866 original size:14 final size:14
Alignment explanation
Indices: 901847--901874 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
901837 AAGTGAAAGA
901847 ATAGTTATATAATT
1 ATAGTTATATAATT
901861 ATAGTTATATAATT
1 ATAGTTATATAATT
901875 TTGTTATGAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:908833 original size:13 final size:14
Alignment explanation
Indices: 908810--908839 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
908800 TTCCCATTAC
908810 AGACGTGCATATGA
1 AGACGTGCATATGA
908824 AGAC-TGCATATGA
1 AGACGTGCATATGA
908837 AGA
1 AGA
908840 TTGTTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:913448 original size:23 final size:24
Alignment explanation
Indices: 913419--913468 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
913409 TATGTATTTG
*
913419 ATACATATAATA-TTTTAACTCAA
1 ATACATATAATATTTTTAACTAAA
*
913442 ATACATATATTATTTTTAACTAAA
1 ATACATATAATATTTTTAACTAAA
913466 ATA
1 ATA
913469 AAATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (24 bp):
ATACATATAATATTTTTAACTAAA
Found at i:913476 original size:24 final size:24
Alignment explanation
Indices: 913423--913478 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
913413 TATTTGATAC
* * *
913423 ATATAATA-TTTTAACTCAAATAC
1 ATATATTATTTTTAACTAAAATAA
913446 ATATATTATTTTTAACTAAAATAA
1 ATATATTATTTTTAACTAAAATAA
913470 A-ATTATTAT
1 ATA-TATTAT
913479 AATTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (24 bp):
ATATATTATTTTTAACTAAAATAA
Found at i:913541 original size:39 final size:37
Alignment explanation
Indices: 913389--913547 Score: 101
Period size: 39 Copynumber: 4.2 Consensus size: 37
913379 TTTGAATTAC
*
913389 ATATTTAGTTAAAAATAATATATGTATTTGATACATATA
1 ATATTTAGTTAAAATTAATATAT-TATTT-ATACATATA
** * * *
913428 ATATTTTAACTCAAA-TACATATATTATTTTTA-ACTAAA
1 ATA-TTTAGTTAAAATTA-ATATATTATTTATACA-TATA
* * * * * *
913466 ATAAAATTA-TTATAATT-ATAAATAACTTATATATATA
1 AT--ATTTAGTTAAAATTAATATATTATTTATACATATA
913503 ATATTTAGTTAAAATTAATATATGTATTTGATACATATA
1 ATATTTAGTTAAAATTAATATAT-TATTT-ATACATATA
913542 ATATTT
1 ATATTT
913548 TAACTAAAAT
Statistics
Matches: 89, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
35 4 0.04
36 7 0.08
37 21 0.24
38 14 0.16
39 28 0.31
40 15 0.17
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATTTAGTTAAAATTAATATATTATTTATACATATA
Found at i:913612 original size:114 final size:112
Alignment explanation
Indices: 913389--913614 Score: 287
Period size: 114 Copynumber: 2.0 Consensus size: 112
913379 TTTGAATTAC
* * *
913389 ATATTTAGTTAAAAATAATATATGTATTTGATACATATAATATTTTAACTCAAATACATATATTA
1 ATATTTAGTTAAAAATAATATATGTATTTGATACATATAATATTTTAACTAAAATAAATATATAA
* *
913454 TTTTTAACTAAAATAAAATTATTATAATTATAAATAACTTATATATATA
66 TTTTTAACTAAAATAAAATAAATATAATTATAAATAA--TATATATATA
*
913503 ATATTTAGTTAAAATTAATATATGTATTTGATACATATAATATTTTAACTAAAATGAAATAATTA
1 ATATTTAGTTAAAAATAATATATGTATTTGATACATATAATATTTTAACTAAAAT-AAAT-A-TA
*
913568 TAATTATTGTAATTATAAATATAAATAAATAT-ATT-TAAA-AATATATA
63 TAATT-TT-TAACTA-AAATA-AAATAAATATAATTATAAATAATATATA
913615 ATTATTATAA
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
114 53 0.54
115 3 0.03
116 7 0.07
117 6 0.06
118 4 0.04
119 9 0.09
120 8 0.08
121 8 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (112 bp):
ATATTTAGTTAAAAATAATATATGTATTTGATACATATAATATTTTAACTAAAATAAATATATAA
TTTTTAACTAAAATAAAATAAATATAATTATAAATAATATATATATA
Found at i:913614 original size:90 final size:91
Alignment explanation
Indices: 913442--913614 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 91
913432 TTTAACTCAA
* * *
913442 ATACATATATTATTTTTAACTAAAATAAAATTATTATAATTATAAATAACTTATATATATAATAT
1 ATACATATAATATTTTTAACTAAAATAAAATAATTATAATTATAAATAACTTATAAATATAATAT
* *
913507 TTAGTTAAAATTAATATATGTATTTG
66 ATAGTTAAAAATAATATATGTATTTG
* **
913533 ATACATATAATA-TTTTAACTAAAATGAAATAATTATAATTAT-TGTAA-TTATAAATATAAATA
1 ATACATATAATATTTTTAACTAAAATAAAATAATTATAATTATAAATAACTTATAAATAT-AAT-
*
913595 AATATATTTAAAAAT-ATATA
64 -ATATAGTTAAAAATAATATA
913615 ATTATTATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
88 9 0.13
89 6 0.09
90 33 0.47
91 22 0.31
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (91 bp):
ATACATATAATATTTTTAACTAAAATAAAATAATTATAATTATAAATAACTTATAAATATAATAT
ATAGTTAAAAATAATATATGTATTTG
Found at i:913683 original size:91 final size:91
Alignment explanation
Indices: 913596--914027 Score: 381
Period size: 92 Copynumber: 4.6 Consensus size: 91
913586 ATATAAATAA
* * *
913596 ATATATTTAAAAATATATAATTATTATAATTATCAAACTTTATTAAATATATATTTATCA-AATA
1 ATATATTTAAAAAGAGATAATTATTATAATTATCAAACTCTATTAAATATATATTTA-CATAATA
*
913660 GAATCTAATCTCAATTGAAATAAATTT
65 AAATCTAATCTCAATTGAAATAAATTT
* * *
913687 ATATAGTTT-AAAAGAGATAATTATTTTAATCATCAAACTCTATTAAAATATATATTTACATGAT
1 ATATA-TTTAAAAAGAGATAATTATTATAATTATCAAACTCTATT-AAATATATATTTACATAAT
* * *
913751 AAAATCTTATCTCAATTGAGATAGATTT
64 AAAATCTAATCTCAATTGAAATAAATTT
* *
913779 ATATATTTAAAATAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATGTATATTTATA
1 ATATATTTAAAA-AGAGATAATTATTATAATTATCAAACTCTATT--AA-ATA--TATATTTACA
* * * * *
913844 TGATAAAA-CAATATCTTAGTCGAAATAAATTT
60 TAATAAAATCTA-ATCTCAATTGAAATAAATTT
* * * *** *
913876 ATATATTCAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAATATATATAATTGTTTGAT
1 ATATATTTAAAA-AGAGATAATTATTATAATTATCAAACTCTATTAA-ATATATATTTACATAAT
* * * * **
913941 AGAA-CTTAATCTGAGTTGAGATAGGTTTTT
64 AAAATC-TAATCTCAATTGAAATA--AATTT
* *
913971 ATATATATAAAAA-A-ATAATTATTATAATTATCAAACTCTTTTAAATGATAATATTTA
1 ATATATTTAAAAAGAGATAATTATTATAATTATCAAACTCTATTAAAT-AT-ATATTTA
914028 GTTTAAGTTA
Statistics
Matches: 288, Mismatches: 38, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
91 42 0.15
92 80 0.28
93 63 0.22
94 5 0.02
95 22 0.08
96 1 0.00
97 75 0.26
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (91 bp):
ATATATTTAAAAAGAGATAATTATTATAATTATCAAACTCTATTAAATATATATTTACATAATAA
AATCTAATCTCAATTGAAATAAATTT
Found at i:913893 original size:97 final size:94
Alignment explanation
Indices: 913596--913929 Score: 346
Period size: 97 Copynumber: 3.6 Consensus size: 94
913586 ATATAAATAA
* * * *
913596 ATATATTTAAAAATATATAATTATTATAATTATCAAACTTTATT--AA-ATA-TATATTTATCA-
1 ATATA-TTAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATTATATTTA-CAT
* * *
913656 AATAGAATC-TAATCTCAATTGAAATAAATTT
64 GATAAAATCAT-ATCTCAATCGAAATAAATTT
* * *
913687 ATATAGTTTAAAAGAGATAATTATTTTAATCATCAAACTCTATT-AAA-ATA-TATATTTACATG
1 ATATA-TTAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATTATATTTACATG
* * * *
913749 ATAAAATCTTATCTCAATTGAGATAGATTT
65 ATAAAATCATATCTCAATCGAAATAAATTT
*
913779 ATATATTTAAAATAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATGTATATTTATA
1 ATATA-TTAAAA-AGAGATAATTATTGTAATTATCAAACTCTATTAAAATATAT-TATATTTACA
* *
913844 TGATAAAA-CAATATCTTAGTCGAAATAAATTT
63 TGATAAAATC-ATATCTCAATCGAAATAAATTT
*
913876 ATATATTCAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAATATATAT
1 ATATATT-AAAA-AGAGATAATTATTGTAATTATCAAACTCTATTAAAATATAT
913930 AATTGTTTGA
Statistics
Matches: 209, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
91 39 0.19
92 48 0.23
93 31 0.15
94 3 0.01
95 3 0.01
96 3 0.01
97 82 0.39
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (94 bp):
ATATATTAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATTATATTTACATGA
TAAAATCATATCTCAATCGAAATAAATTT
Found at i:913930 original size:190 final size:188
Alignment explanation
Indices: 913596--914015 Score: 466
Period size: 189 Copynumber: 2.2 Consensus size: 188
913586 ATATAAATAA
* *
913596 ATATATTTAAAAATATATAATTATTATAATTATCAAACTTTATT--AA-ATA--TATATTTATCA
1 ATATATATAAAAA-A-ATAATTATTATAATTATCAAACTCTATTAAAATATATGTATATTTAT-A
* * * * * * * *
913656 -AATAGAATCTA-ATCTCAATTGAAATAAATTTATATAGTTTAAAAGAGATAATTATTTTAATCA
63 TGATA-AAACAATATCTTAGTCGAAATAAATTTATATAGTTAAAAAGAGATAATTATTGTAATCA
*
913719 TCAAACTCTATTAAAATATATATTTACATGATAAAATCTT-ATCTCAATTGAGATA-G-ATTT
127 TCAAACTCTATTAAAATATATAATTACATGATAAAA-CTTAATCTCAATTGAGATAGGTATTT
* *
913779 ATATATTTAAAATAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATGTATATTTATA
1 ATATATATAAAA-A-A-ATAATTATTATAATTATCAAACTCTATTAAAATATATGTATATTTATA
*
913844 TGATAAAACAATATCTTAGTCGAAATAAATTTATATA-TTCAAAAGAGAGATAATTATTGTAATT
63 TGATAAAACAATATCTTAGTCGAAATAAATTTATATAGTT-AAAA-AGAGATAATTATTGTAATC
* *** * * * *
913908 ATCAAACTCTATTAATATATATAATTGTTTGATAGAACTTAATCTGAGTTGAGATAGGTTTTT
126 ATCAAACTCTATTAAAATATATAATTACATGATAAAACTTAATCTCAATTGAGATAGGTATTT
*
913971 ATATATATAAAAAAATAATTATTATAATTATCAAACTCTTTTAAA
1 ATATATATAAAAAAATAATTATTATAATTATCAAACTCTATTAAA
914016 TGATAATATT
Statistics
Matches: 199, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
183 12 0.06
184 28 0.14
186 2 0.01
187 3 0.02
188 7 0.04
189 69 0.35
190 62 0.31
191 2 0.01
192 14 0.07
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (188 bp):
ATATATATAAAAAAATAATTATTATAATTATCAAACTCTATTAAAATATATGTATATTTATATGA
TAAAACAATATCTTAGTCGAAATAAATTTATATAGTTAAAAAGAGATAATTATTGTAATCATCAA
ACTCTATTAAAATATATAATTACATGATAAAACTTAATCTCAATTGAGATAGGTATTT
Found at i:913976 original size:97 final size:92
Alignment explanation
Indices: 913596--914014 Score: 342
Period size: 97 Copynumber: 4.5 Consensus size: 92
913586 ATATAAATAA
* * * * * *
913596 ATATAT-TTAAAAATATATAATTATTATAATTATCAAACTTTATTAA-ATATAT-ATTTATCA-A
1 ATATATATTAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAATATATATAATTTTTGATA
* * * *
913657 ATAGAATCTAATCTCAATTGAAATAAATTT
66 A-A-ACT-TAATCTCAGTTGAGATAGATTT
* * * *
913687 ATATAGT-TT-AAAAGAGATAATTATTTTAATCATCAAACTCTATTAAAATATAT-ATTTACATG
1 ATATA-TATTAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAATATATATAATTT--TTG
*
913749 ATAAAATCTT-ATCTCAATTGAGATAGATTT
63 ATAAAA-CTTAATCTCAGTTGAGATAGATTT
*
913779 ATATAT-TTAAAATAGAGATAATTATTGTAATTATCAAACTCTATTAAAATATATGTATATTTAT
1 ATATATATTAAAA-AGAGATAATTATTGTAATTATCAAACTCTATT--AATATATATA-ATTT-T
* * * * *
913843 ATGATAAAAC-AATATCTTAGTCGAAATAAATTT
61 -TGATAAAACTTA-ATCTCAGTTGAGATAGATTT
*
913876 ATATAT-TCAAAAGAGAGATAATTATTGTAATTATCAAACTCTATTAATATATATAATTGTTTGA
1 ATATATATTAAAA-AGAGATAATTATTGTAATTATCAAACTCTATTAATATATATAATT-TTTGA
* * *
913940 TAGAACTTAATCTGAGTTGAGATAGGTTT
64 TAAAACTTAATCTCAGTTGAGATAGATTT
* * *
913969 TTATATATATAAAAA-A-ATAATTATTATAATTATCAAACTCTTTTAA
1 ATATATAT-TAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAA
914015 ATGATAATAT
Statistics
Matches: 274, Mismatches: 35, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
91 40 0.15
92 67 0.24
93 61 0.22
94 12 0.04
95 23 0.08
96 1 0.00
97 70 0.26
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (92 bp):
ATATATATTAAAAAGAGATAATTATTGTAATTATCAAACTCTATTAATATATATAATTTTTGATA
AAACTTAATCTCAGTTGAGATAGATTT
Found at i:917355 original size:24 final size:25
Alignment explanation
Indices: 917327--917380 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
917317 GAATGTTTTA
*
917327 TCTGATTTTC-GATTTGAATTATGT
1 TCTGATTTTCTGATCTGAATTATGT
*
917351 TCTGA-TTTCTGATCTGGATTATGT
1 TCTGATTTTCTGATCTGAATTATGT
*
917375 TATGAT
1 TCTGAT
917381 ATATATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (25 bp):
TCTGATTTTCTGATCTGAATTATGT
Found at i:929574 original size:2 final size:2
Alignment explanation
Indices: 929567--929619 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
929557 ATCATACTAT
929567 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
929609 TA TA TA TA TA T
1 TA TA TA TA TA T
929620 CTTTTAATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:929970 original size:3 final size:3
Alignment explanation
Indices: 929962--929992 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
929952 TAAATAACTT
929962 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
929993 AAGACAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:934122 original size:24 final size:23
Alignment explanation
Indices: 934073--934123 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
934063 TTATTCGGAT
*
934073 AAAATGTTTTTGACAATGAATTA
1 AAAATGCTTTTGACAATGAATTA
934096 AAAATGCTTTTGACAATGAATTA
1 AAAATGCTTTTGACAATGAATTA
934119 AAAAT
1 AAAAT
934124 TCCTTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (23 bp):
AAAATGCTTTTGACAATGAATTA
Found at i:934798 original size:33 final size:33
Alignment explanation
Indices: 934734--934799 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
934724 ACTCCACTAG
* * * **
934734 CAAATAATCCAAACCACGACTAATTTTGATATT
1 CAAATAATCAAAACCACAAATAATTAAGATATT
*
934767 CAAATAATTAAAACCACAAATAATTAAGATATT
1 CAAATAATCAAAACCACAAATAATTAAGATATT
934800 TTAAAATTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.29
Consensus pattern (33 bp):
CAAATAATCAAAACCACAAATAATTAAGATATT
Found at i:936208 original size:32 final size:32
Alignment explanation
Indices: 936143--936209 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
936133 CATGTTATCT
* * *
936143 AAAGAATGACGTGATATGTGACGCATCATCCG
1 AAAGAATAACGTGATATGTGACACATCACCCG
* *
936175 AAAGAATAACTTGATATGTGACATATCACCCG
1 AAAGAATAACGTGATATGTGACACATCACCCG
936207 AAA
1 AAA
936210 AGATGACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (32 bp):
AAAGAATAACGTGATATGTGACACATCACCCG
Found at i:940006 original size:21 final size:19
Alignment explanation
Indices: 939968--940013 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
939958 AATTAATCCT
939968 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
939988 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
940009 A-TAAT
1 ACTAAT
940014 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:945437 original size:23 final size:23
Alignment explanation
Indices: 945409--945471 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
945399 CAGCTCGTAT
945409 AATGCACCGAAGTGCCACGTAGA
1 AATGCACCGAAGTGCCACGTAGA
* * *
945432 ATTGCACCGTAGTGCCGCGTAGA
1 AATGCACCGAAGTGCCACGTAGA
945455 AATGCACCGAAGTGCCA
1 AATGCACCGAAGTGCCA
945472 TATAAGGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (23 bp):
AATGCACCGAAGTGCCACGTAGA
Found at i:951766 original size:21 final size:19
Alignment explanation
Indices: 951728--951773 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
951718 AATTAATCCT
951728 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
951748 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
951769 A-TAAT
1 ACTAAT
951774 TATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:957475 original size:61 final size:61
Alignment explanation
Indices: 957380--957650 Score: 515
Period size: 61 Copynumber: 4.4 Consensus size: 61
957370 AAAACTATAA
957380 TATTACGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
1 TATTACGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
*
957441 TATTAAGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
1 TATTACGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
*
957502 TATTAAGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
1 TATTACGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
*
957563 TATTACGACCGAATTGGTCATTGTCAAACTATATACTTAGCCTCTAGATATTGTTGTTTTC
1 TATTACGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
957624 TATTACGACCGAATTGGTCATTGTCAA
1 TATTACGACCGAATTGGTCATTGTCAA
957651 TATGTAATAT
Statistics
Matches: 207, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 207 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (61 bp):
TATTACGACCGAATTGGTCATTGTCAAACTATATACTTGGCCTCTAGATATTGTTGTTTTC
Found at i:968653 original size:26 final size:26
Alignment explanation
Indices: 968624--968673 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
968614 GGTCTGACAT
*
968624 GGCAGCTTCTAGAAGGTCCAGTCAAC
1 GGCAGCTTCTAGAAGATCCAGTCAAC
* *
968650 GGCAGTTTCTAGAAGATCTAGTCA
1 GGCAGCTTCTAGAAGATCCAGTCA
968674 GTGCGCCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (26 bp):
GGCAGCTTCTAGAAGATCCAGTCAAC
Found at i:971880 original size:31 final size:31
Alignment explanation
Indices: 971839--971905 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
971829 TTAACGGTTG
* * *
971839 AGGGATTAAAATCGAATGGATTGATAATATT
1 AGGGAATAAAATCAAATGGATCGATAATATT
*
971870 AGGGAATAAAATCAAATTGATCGATAATATT
1 AGGGAATAAAATCAAATGGATCGATAATATT
971901 AGGGA
1 AGGGA
971906 TCATTTTCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.28
Consensus pattern (31 bp):
AGGGAATAAAATCAAATGGATCGATAATATT
Found at i:992988 original size:54 final size:54
Alignment explanation
Indices: 992902--993022 Score: 206
Period size: 54 Copynumber: 2.2 Consensus size: 54
992892 TACCTCTATG
992902 GGGGTATCGGTACCCAATCGGCATTCTATTTTTCTCGGAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCAATCGGCATTCTATTTTTCTCGGAGCCAAAATTGGCATA
* * * *
992956 GGGGTATCGGTACCCATTTGGCATTCTGTTTTTCTTGGAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCAATCGGCATTCTATTTTTCTCGGAGCCAAAATTGGCATA
993010 GGGGTATCGGTAC
1 GGGGTATCGGTAC
993023 ACCCTATGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (54 bp):
GGGGTATCGGTACCCAATCGGCATTCTATTTTTCTCGGAGCCAAAATTGGCATA
Found at i:993652 original size:27 final size:27
Alignment explanation
Indices: 993599--993659 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
993589 AATTAATATA
* *
993599 AACCAATATAAACATTAAATTCAAATC
1 AACCAAAATAAAAATTAAATTCAAATC
*
993626 AACCAAAATAAAAATATAAGTTC-AATC
1 AACCAAAATAAAAAT-TAAATTCAAATC
*
993653 ATCCAAA
1 AACCAAA
993660 CATCCATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.57, C:0.18, G:0.02, T:0.23
Consensus pattern (27 bp):
AACCAAAATAAAAATTAAATTCAAATC
Found at i:995166 original size:17 final size:17
Alignment explanation
Indices: 995134--995172 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
995124 AGTTTTCATG
995134 AAAACAACATAATTAAATA
1 AAAACAACA-AATTAAA-A
995153 AAAACAAC-AATTAAAA
1 AAAACAACAAATTAAAA
995169 AAAA
1 AAAA
995173 TCATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 7 0.35
19 8 0.40
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAACAACAAATTAAAA
Found at i:995679 original size:21 final size:23
Alignment explanation
Indices: 995606--995668 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
995596 ATCTTTATAG
995606 GGGTATCGATACACATTCAAAGA
1 GGGTATCGATACACATTCAAAGA
995629 GGGTATCGATACACATTCAAAGA
1 GGGTATCGATACACATTCAAAGA
*
995652 GGGTATCTATACACATT
1 GGGTATCGATACACATT
995669 GAAGGGGTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (23 bp):
GGGTATCGATACACATTCAAAGA
Found at i:1002186 original size:42 final size:41
Alignment explanation
Indices: 1002124--1002220 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 41
1002114 ACTTAGTAAG
** *
1002124 TCATTCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
1 TCATTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGA-TAAA
* * *
1002166 TCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAG
1 TCATTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAA
1002207 TCATTCGGGCCATC
1 TCATTCGGGCCATC
1002221 CATAAGACCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 15 0.32
42 32 0.68
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
TCATTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:1002402 original size:237 final size:236
Alignment explanation
Indices: 1001827--1002442 Score: 912
Period size: 236 Copynumber: 2.6 Consensus size: 236
1001817 TCTTAAATCA
* *
1001827 TTTTGAAAATGAAATTTTTGAAAAGTAATAAAGAGATTTCCAAAGTTTCTTACTTAGTAAGTCCT
1 TTTTGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCT
* *
1001892 TCGGGCCATCAGAAAGTCTTTT-GAGCATGATGATTAAATCTTTCGGGTCATCTGTAAGTCTTTC
66 TCGGGCCATCAGTAAGT-TTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC
* * * * *
1001956 GAGCAAGATGATAAGTCCTTTGGGCCATCCATGAGACCTTCAGGCATGATGTTTTTACATGAATT
130 GAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAAGATATTTTTACATGAATT
*
1002021 TGAAAATTAGAAAGCAATTTTCAAAGTTTCTCATTTAATGAT
195 TGAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGAT
* * *
1002063 TTTTGAAAATGAAATATTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTCAT
1 TTTTGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCT
* *
1002128 TCGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
66 TCGGGCCATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
**
1002193 AGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTTGGGCAAGATATTTTTACATGAATTT
131 AGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAAGATATTTTTACATGAATTT
** *
1002258 GAAAAATGAGAAAGCGGTTTTCAAAGTTTCTCATTTAATGTT
196 G-AAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGAT
* * *
1002300 TTTTTAAGATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGACCT
1 TTTTGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCT
* * * ** * **
1002365 TCAGACCATCAGTAAGTTTTTCGAGCATGACGATTAAATCCTTCCCGTCATCTGTCAG-GATTCT
66 TCGGGCCATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC-
1002429 GAGCAAGATGATAA
130 GAGCAAGATGATAA
1002443 ATTCTTTGGG
Statistics
Matches: 341, Mismatches: 36, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
235 3 0.01
236 179 0.52
237 159 0.47
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (236 bp):
TTTTGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCCT
TCGGGCCATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCG
AGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAAGATATTTTTACATGAATTT
GAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGAT
Found at i:1002505 original size:37 final size:37
Alignment explanation
Indices: 1002455--1002529 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
1002445 TCTTTGGGCT
*
1002455 ATCTTAAGCCTTCACAGAAGGGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCA
* *
1002492 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAACTCA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCA
1002529 A
1 A
1002530 GATCGAGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (37 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCA
Found at i:1010670 original size:21 final size:21
Alignment explanation
Indices: 1010627--1010684 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
1010617 ATTTACCGTG
* * *
1010627 ATTGCGGCCGTCGTGGGCGCT
1 ATTGCGGCCGCCGCGGACGCT
*
1010648 ATTGCGGCCGCCGCGGACTCT
1 ATTGCGGCCGCCGCGGACGCT
**
1010669 ATTTTGGCCGCCGCGG
1 ATTGCGGCCGCCGCGG
1010685 GTAAATCGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.07, C:0.33, G:0.38, T:0.22
Consensus pattern (21 bp):
ATTGCGGCCGCCGCGGACGCT
Found at i:1012589 original size:94 final size:94
Alignment explanation
Indices: 1012428--1012616 Score: 324
Period size: 94 Copynumber: 2.0 Consensus size: 94
1012418 GTCATGAAGA
* *
1012428 TATAAGGTTTGTCAAAATTATATGCATATTTCTTGGAATTATGGAGTAATCTTTTTGTTTTGGTT
1 TATAAGGTTTGTCAAAATCATATGCATATTTCATGGAATTATGGAGTAATCTTTTTGTTTTGGTT
* * * *
1012493 AAAAGAGTAATGGGCTTTTGGTGAATTAG
66 AAAAGAGTAAAGGACTTTTAGCGAATTAG
1012522 TATAAGGTTTGTCAAAATCATATGCATATTTCATGGAATTATGGAGTAATCTTTTTGTTTTGGTT
1 TATAAGGTTTGTCAAAATCATATGCATATTTCATGGAATTATGGAGTAATCTTTTTGTTTTGGTT
1012587 AAAAGAGTAAAGGACTTTTAGCGAATTAG
66 AAAAGAGTAAAGGACTTTTAGCGAATTAG
1012616 T
1 T
1012617 CAAGATTTAC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (94 bp):
TATAAGGTTTGTCAAAATCATATGCATATTTCATGGAATTATGGAGTAATCTTTTTGTTTTGGTT
AAAAGAGTAAAGGACTTTTAGCGAATTAG
Done.