Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 19
Found at i:826425 original size:35 final size:36
Alignment explanation
Indices: 826348--826440 Score: 95
Period size: 35 Copynumber: 2.6 Consensus size: 36
826338 CATTGAATAC
* *
826348 AATGTATGTGATAT-ATATATGTGTTTTGTGATATA
1 AATGTATATGATATGATATATGTGTTTAGTGATATA
826383 AAT-TATATGATATGATATATGTGTGTTAGTGAT-T-
1 AATGTATATGATATGATATATGTGT-TTAGTGATATA
* *
826417 ATTGTATATGTTATAAGATATATG
1 AATGTATATG--ATATGATATATG
826441 ATATGAACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
34 11 0.22
35 20 0.41
36 7 0.14
37 11 0.22
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.47
Consensus pattern (36 bp):
AATGTATATGATATGATATATGTGTTTAGTGATATA
Found at i:829607 original size:2 final size:2
Alignment explanation
Indices: 829600--829624 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
829590 CATCATTGCC
829600 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
829625 GGATGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:841124 original size:21 final size:21
Alignment explanation
Indices: 841100--841140 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
841090 ATTCTGACTA
*
841100 TCGCATTGTGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
*
841121 TCGCGTTGCGATTTCCCAAA
1 TCGCATTGCGATTTCCCAAA
841141 ACCGCAACGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:841164 original size:20 final size:20
Alignment explanation
Indices: 841139--841239 Score: 184
Period size: 20 Copynumber: 5.0 Consensus size: 20
841129 CGATTTCCCA
*
841139 AAACCGCAACGCGAATACGT
1 AAACCGCAACGCGATTACGT
841159 AAACCGCAACGCGATTACGT
1 AAACCGCAACGCGATTACGT
841179 AAACCGCAACGCGATTACGT
1 AAACCGCAACGCGATTACGT
841199 AAACCGCAACGCGATTACGT
1 AAACCGCAACGCGATTACGT
*
841219 AAACCGCAACGCGAATACGT
1 AAACCGCAACGCGATTACGT
841239 A
1 A
841240 TTCGCAATGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.38, C:0.30, G:0.20, T:0.13
Consensus pattern (20 bp):
AAACCGCAACGCGATTACGT
Found at i:842081 original size:24 final size:24
Alignment explanation
Indices: 842054--842107 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
842044 GTATTCAAAA
842054 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
842078 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
842102 TTTGAT
1 TTTGAT
842108 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:844665 original size:14 final size:14
Alignment explanation
Indices: 844646--844715 Score: 68
Period size: 14 Copynumber: 4.6 Consensus size: 14
844636 GGAAATTACT
*
844646 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
844660 ATCGCAAAGCGAAATGAAA
1 ATCGC-AA-CG--A-GAAA
*
844679 ATCGCAACGTGAAA
1 ATCGCAACGAGAAA
*
844693 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
844707 ATCGCAACG
1 ATCGCAACG
844716 CGAATATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 31 0.65
15 2 0.04
16 2 0.04
17 2 0.04
18 3 0.06
19 8 0.17
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:844683 original size:33 final size:33
Alignment explanation
Indices: 844646--844787 Score: 139
Period size: 33 Copynumber: 4.3 Consensus size: 33
844636 GGAAATTACT
844646 ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
* * * *
844679 ATCGCAACGTGAAAATCGCAACGCGAAAATCG-CA
1 ATCGCAACGAGAGAATCGCAAAGCG-AAAT-GAAA
* *
844713 A-CGCGAA-TATGA-ATATCGCAATGCGAAATGAAA
1 ATCGC-AACGA-GAGA-ATCGCAAAGCGAAATGAAA
*
844746 ATCGCAACGAGGGAATCGCAAAGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
*
844779 ATCACAACG
1 ATCGCAACG
844788 CGAATTTAGT
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
32 1 0.01
33 61 0.69
34 25 0.28
35 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAAAGCGAAATGAAA
Found at i:844732 original size:20 final size:19
Alignment explanation
Indices: 844659--844791 Score: 89
Period size: 14 Copynumber: 7.7 Consensus size: 19
844649 GCAACGAGAG
*
844659 AATCGCAAAGCGAAATGAA
1 AATCGCAACGCGAAATGAA
844678 AATCGCAA--CG---TGAA
1 AATCGCAACGCGAAATGAA
844692 AATCGCAACGC-----GAA
1 AATCGCAACGCGAAATGAA
844706 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAA-ATGAA
* *
844726 TATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
**
844745 AATCGCAA--CG--A-GGG
1 AATCGCAACGCGAAATGAA
*
844759 AATCGCAAAGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
844778 AATCACAACGCGAA
1 AATCGCAACGCGAA
844792 TTTAGTTTCG
Statistics
Matches: 92, Mismatches: 9, Indels: 26
0.72 0.07 0.20
Matches are distributed among these distances:
14 35 0.38
15 1 0.01
16 3 0.03
17 4 0.04
18 1 0.01
19 33 0.36
20 15 0.16
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:844831 original size:19 final size:19
Alignment explanation
Indices: 844787--844863 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
844777 AAATCACAAC
*
844787 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
**
844806 GTAATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
844825 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
844839 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
844858 GCGATT
1 GCGATT
844864 CTCTCGTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.26
16 1 0.02
17 1 0.02
18 1 0.02
19 31 0.67
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:844846 original size:33 final size:33
Alignment explanation
Indices: 844816--844895 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
844806 GTAATTTTAG
* * * *
844816 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTACGATTTTCA
844849 TTTCGCATTGCGATTCTCTCGTTACGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTACGATTTTCA
844882 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
844896 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTACGATTTTCA
Found at i:845019 original size:14 final size:14
Alignment explanation
Indices: 845002--845038 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
844992 CATCAATTAA
845002 ACAAATCAAATTTT
1 ACAAATCAAATTTT
**
845016 ACAAATCATCTTTT
1 ACAAATCAAATTTT
845030 ACAAATCAA
1 ACAAATCAA
845039 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAAATTTT
Found at i:846434 original size:21 final size:21
Alignment explanation
Indices: 846404--846499 Score: 59
Period size: 21 Copynumber: 4.6 Consensus size: 21
846394 TGAATGGTGG
*
846404 GAGGGACCTCTTCAACGATGA
1 GAGGGGCCTCTTCAACGATGA
* * * * *
846425 TAGTGGCCTCTTGAACGGTGG
1 GAGGGGCCTCTTCAACGATGA
* * *
846446 GAGGGGACTC-TCGAGGAATGA
1 GAGGGGCCTCTTCAACG-ATGA
* *
846467 TAGGGGCCTCTTCAACGATAA
1 GAGGGGCCTCTTCAACGATGA
* *
846488 GAGTGGACTCTT
1 GAGGGGCCTCTT
846500 GAGGGATGAC
Statistics
Matches: 51, Mismatches: 22, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.86
22 4 0.08
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
GAGGGGCCTCTTCAACGATGA
Found at i:846467 original size:42 final size:42
Alignment explanation
Indices: 846390--846483 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
846380 GTGAATCGGG
* *
846390 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTCAACGATGATAGGGGC
* *
846432 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTCAACG-ATGATAGGGGC
*
846474 CTCTTCAACG
1 CTCTTGAACG
846484 ATAAGAGTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 4 0.09
42 37 0.82
43 4 0.09
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTCAACGATGATAGGGGC
Found at i:846496 original size:42 final size:42
Alignment explanation
Indices: 846421--846508 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
846411 CTCTTCAACG
* * * **
846421 ATGATAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGA
1 ATGATAGGGGCCTCTTCAACGATAAGAGGGGACTCTCGAGGA
* * *
846463 ATGATAGGGGCCTCTTCAACGATAAGAGTGGACTCTTGAGGG
1 ATGATAGGGGCCTCTTCAACGATAAGAGGGGACTCTCGAGGA
846505 ATGA
1 ATGA
846509 CAGGCGAGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.36, T:0.23
Consensus pattern (42 bp):
ATGATAGGGGCCTCTTCAACGATAAGAGGGGACTCTCGAGGA
Found at i:848875 original size:20 final size:19
Alignment explanation
Indices: 848847--848997 Score: 71
Period size: 19 Copynumber: 8.6 Consensus size: 19
848837 TGAAATAAAA
848847 ATCGCAACGAGATAATGACT
1 ATCGCAACGAGA-AATGACT
* *
848867 ATTGCAACGCGGAAATGACT
1 ATCGCAACG-AGAAATGACT
848887 ATCGCAACGAG--A-GA--
1 ATCGCAACGAGAAATGACT
* **
848901 ATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAAATGACT
*
848920 ATCGCAATGAG--A-GA--
1 ATCGCAACGAGAAATGACT
* **
848934 ATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAAATGACT
848953 ATCGCAACGAG--A-GA--
1 ATCGCAACGAGAAATGACT
* **
848967 ATCGCAACGCGAAATGAAA
1 ATCGCAACGAGAAATGACT
848986 ATCGCAACGAGA
1 ATCGCAACGAGA
848998 TAATCGCAAC
Statistics
Matches: 103, Mismatches: 12, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
14 29 0.28
16 9 0.09
17 9 0.09
19 31 0.30
20 23 0.22
21 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.13
Consensus pattern (19 bp):
ATCGCAACGAGAAATGACT
Found at i:848906 original size:14 final size:14
Alignment explanation
Indices: 848887--849013 Score: 65
Period size: 14 Copynumber: 8.0 Consensus size: 14
848877 GGAAATGACT
*
848887 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
848901 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
* *
848920 ATCGCAATGAGAGA
1 ATCGCAACGAGAAA
848934 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
848953 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
848967 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
848986 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
*
849000 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
849014 CCAAAATCGC
Statistics
Matches: 88, Mismatches: 10, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
14 42 0.48
15 3 0.03
16 5 0.06
17 5 0.06
18 3 0.03
19 30 0.34
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:848924 original size:19 final size:19
Alignment explanation
Indices: 848900--848994 Score: 93
Period size: 19 Copynumber: 5.5 Consensus size: 19
848890 GCAACGAGAG
848900 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
848919 AATCGCAA--TG--A-GAG
1 AATCGCAACGCGAAATGAA
848933 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
848952 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
848966 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
848985 AATCGCAACG
1 AATCGCAACG
848995 AGATAATCGC
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 20 0.33
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 30 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:848924 original size:33 final size:33
Alignment explanation
Indices: 848870--849024 Score: 247
Period size: 33 Copynumber: 4.7 Consensus size: 33
848860 AATGACTATT
**
848870 GCAACGCGGAAATGACTATCGCAACGAGAGAATC
1 GCAACGC-GAAATGAAAATCGCAACGAGAGAATC
*
848904 GCAACGCGAAATGAAAATCGCAATGAGAGAATC
1 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
848937 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
*
848970 GCAACGCGAAATGAAAATCGCAACGAGATAATC
1 GCAACGCGAAATGAAAATCGCAACGAGAGAATC
**
849003 GCAACGCGAAACCAAAATCGCA
1 GCAACGCGAAATGAAAATCGCA
849025 TTGCGATTTT
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 107 0.94
34 7 0.06
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
GCAACGCGAAATGAAAATCGCAACGAGAGAATC
Found at i:849076 original size:21 final size:20
Alignment explanation
Indices: 849057--849128 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
849047 CGATTCTCTC
849057 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
849077 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
849098 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
849118 GTTGCGATTTT
1 GTTGCGATTTT
849129 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:849695 original size:21 final size:20
Alignment explanation
Indices: 849662--849853 Score: 167
Period size: 20 Copynumber: 9.4 Consensus size: 20
849652 TAAAAATTGT
849662 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
849682 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
*
849703 GTTACGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * * * *
849723 ATTGCGATTTATGTATTCTC
1 GTTGCGATTTACGGATACGC
849743 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
849763 GTTGCGATTTTAC--ATATTGTC
1 GTTGCGA-TTTACGGATA-CG-C
* *
849784 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
*
849805 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
849825 GTTGCGATTTTACGGATACTC
1 GTTGCGA-TTTACGGATACGC
849846 GTTGCGAT
1 GTTGCGAT
849854 AGTCAGAATC
Statistics
Matches: 141, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
19 3 0.02
20 71 0.50
21 65 0.46
23 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:849716 original size:41 final size:41
Alignment explanation
Indices: 849657--849853 Score: 231
Period size: 41 Copynumber: 4.8 Consensus size: 41
849647 CGTTTTAAAA
849657 ATTGT-GTTGCGATTTACGGATACGCGTTGCGATTTTACGT
1 ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGT
* * *
849697 ATTGTCGTTACGATTTACGGATACGCATTGCGA-TTTATGT
1 ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGT
* *
849737 ATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACAT
1 ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGT
* * *
849778 ATTGTCGTTGCGATTTTACGTAT-TGTCGTTGCGA-TTTACGG
1 ATTGTCGTTGCGA-TTTACGGATACG-CGTTGCGATTTTACGT
*** *
849819 ATACACGTTGCGATTTTACGGATACTCGTTGCGAT
1 ATTGTCGTTGCGA-TTTACGGATACGCGTTGCGAT
849854 AGTCAGAATC
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 41 0.31
41 75 0.57
42 16 0.12
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (41 bp):
ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGT
Found at i:849848 original size:62 final size:62
Alignment explanation
Indices: 849662--849853 Score: 201
Period size: 62 Copynumber: 3.1 Consensus size: 62
849652 TAAAAATTGT
* * * * *** * *
849662 GTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGA-TTTACGGATACGC
1 GTTGCGATTTTACGTATTCTCGTTGCGA-TTTACGGATACACGTTGCGATTTTACGGATACTC
* * * ** **
849723 ATTGCGA-TTTATGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACATATTGTC
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTC
*
849784 GTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTC
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTC
849846 GTTGCGAT
1 GTTGCGAT
849854 AGTCAGAATC
Statistics
Matches: 106, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
60 15 0.14
61 36 0.34
62 55 0.52
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.39
Consensus pattern (62 bp):
GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTC
Found at i:849869 original size:41 final size:39
Alignment explanation
Indices: 849662--849876 Score: 121
Period size: 41 Copynumber: 5.3 Consensus size: 39
849652 TAAAAATTGT
* * * *
849662 GTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTTACGGATACTCGTTGCGA-TTCA-GAATCG-C
* * * * * *
849703 GTTACGA-TTTACGGATACGCATTGCGATTTATGTATTCTC
1 GTTGCGATTTTACGGATACTCGTTGCGATTCA-G-AATCGC
* * * *
849743 GTTGCGA-TTTACGGATACGCGTTGCGATTTTACATATTGTC
1 GTTGCGATTTTACGGATACTCGTTGCGA-TTCAGA-ATCG-C
* ** * * *
849784 GTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACAC
1 GTTGCGATTTTACGGATACTCGTTGCGATTCA-GAAT-CGC
849825 GTTGCGATTTTACGGATACTCGTTGCGATAGTCAGAATCGC
1 GTTGCGATTTTACGGATACTCGTTGCGAT--TCAGAATCGC
849866 GTTGCGATTTT
1 GTTGCGATTTT
849877 CATATTCGCG
Statistics
Matches: 138, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
39 1 0.01
40 32 0.23
41 84 0.61
42 19 0.14
43 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.39
Consensus pattern (39 bp):
GTTGCGATTTTACGGATACTCGTTGCGATTCAGAATCGC
Found at i:849881 original size:102 final size:102
Alignment explanation
Indices: 849662--849894 Score: 296
Period size: 102 Copynumber: 2.3 Consensus size: 102
849652 TAAAAATTGT
** * *
849662 GTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACGCATT
1 GTTGCGATTTTACATATTCGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACACATT
* * * * *
849726 GCGATTTATGTATTCTCGTTGCGATTTACGGATACGC
66 GCGATTTACGGATACTCGTTGCGATTCACGAATACGC
* *
849763 GTTGCGATTTTACATATT-GTCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACACGT
1 GTTGCGATTTTACATATTCG-CGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACACAT
849827 TGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGC
65 TGCGA-TTTACGGATACTCGTTGCGAT--TCACGAATACGC
849866 GTTGCGATTTT-CATATTCGCGTTGCGATT
1 GTTGCGATTTTACATATTCGCGTTGCGATT
849895 CTGGAAAATC
Statistics
Matches: 115, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 8 0.07
102 69 0.60
103 33 0.29
104 3 0.03
105 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (102 bp):
GTTGCGATTTTACATATTCGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACACATT
GCGATTTACGGATACTCGTTGCGATTCACGAATACGC
Found at i:849894 original size:20 final size:20
Alignment explanation
Indices: 849662--849894 Score: 141
Period size: 20 Copynumber: 11.4 Consensus size: 20
849652 TAAAAATTGT
* *
849662 GTTGCGATTTACGGATACGC
1 GTTGCGATTTTCGGATTCGC
*
849682 GTTGCGATTTTACGTATT-GTC
1 GTTGCGATTTT-CGGATTCG-C
* * *
849703 GTTACGATTTACGGATACGC
1 GTTGCGATTTTCGGATTCGC
* * *
849723 ATTGCGATTTAT-GTATTCTC
1 GTTGCGATTT-TCGGATTCGC
* *
849743 GTTGCGATTTACGGATACGC
1 GTTGCGATTTTCGGATTCGC
**
849763 GTTGCGATTTTACATATT-GTC
1 GTTGCGATTTT-CGGATTCG-C
*
849784 GTTGCGATTTTACGTATT-GTC
1 GTTGCGATTTT-CGGATTCG-C
* * *
849805 GTTGCGATTTACGGATACAC
1 GTTGCGATTTTCGGATTCGC
* *
849825 GTTGCGATTTTACGGATACTC
1 GTTGCGATTTT-CGGATTCGC
** * *
849846 GTTGCGATAGTCAGAATCGC
1 GTTGCGATTTTCGGATTCGC
**
849866 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTTCGGATTCGC
849886 GTTGCGATT
1 GTTGCGATT
849895 CTGGAAAATC
Statistics
Matches: 165, Mismatches: 39, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
20 99 0.60
21 66 0.40
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTTCGGATTCGC
Found at i:849972 original size:20 final size:20
Alignment explanation
Indices: 849882--849976 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
849872 ATTTTCATAT
*
849882 TCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGATTCTGG-AGA
** * *
849903 TCGCAATGCGAATT-TGTACTA
1 TCGCGTTGCG-ATTCTGGA-GA
849924 TCGCGTTGCGATTCTGG-GA
1 TCGCGTTGCGATTCTGGAGA
* **
849943 ACTGATTTGCGATTCTGGAGA
1 TC-GCGTTGCGATTCTGGAGA
849964 TCGCGTTGCGATT
1 TCGCGTTGCGATT
849977 TTTATTTCGT
Statistics
Matches: 55, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
19 2 0.04
20 26 0.47
21 24 0.44
22 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (20 bp):
TCGCGTTGCGATTCTGGAGA
Found at i:850597 original size:40 final size:40
Alignment explanation
Indices: 850548--850693 Score: 247
Period size: 40 Copynumber: 3.6 Consensus size: 40
850538 CTTGATTCAA
*
850548 ATAAATTAATTTATTCGAATCAAGTCGAGGCGGGTCAAAT
1 ATAAATTAATTTATTCGAATCAAGTCGAGGCGGGTCGAAT
* * *
850588 ATAAATTAATTTATTTGAATCAAGTCGAGGTGGATCGAAT
1 ATAAATTAATTTATTCGAATCAAGTCGAGGCGGGTCGAAT
850628 ATAAATTAATTTATTCGAATCAAGTCGAGGCGGGTCGAAT
1 ATAAATTAATTTATTCGAATCAAGTCGAGGCGGGTCGAAT
*
850668 ATAAATTAATTTATTCTAATCAAGTC
1 ATAAATTAATTTATTCGAATCAAGTC
850694 ATTTTAGGGT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (40 bp):
ATAAATTAATTTATTCGAATCAAGTCGAGGCGGGTCGAAT
Found at i:851636 original size:45 final size:42
Alignment explanation
Indices: 851586--851688 Score: 118
Period size: 45 Copynumber: 2.4 Consensus size: 42
851576 TTGGGTTGAC
* *
851586 ATGGGTCACACAACATCAACATCTCCCATGTATCTCAGG-TGAGGT
1 ATGGGTCACACAACATCAACACCTCCCAT-CAT-T-AGGCT-AGGT
* *
851631 ATGGGTCACATAGCATCAACACCTCCCATCATTAGGCTAGGT
1 ATGGGTCACACAACATCAACACCTCCCATCATTAGGCTAGGT
*
851673 CTGGGTCACACAACAT
1 ATGGGTCACACAACAT
851689 TGGCACATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 20 0.40
43 2 0.04
44 2 0.04
45 26 0.52
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGGGTCACACAACATCAACACCTCCCATCATTAGGCTAGGT
Found at i:852865 original size:23 final size:23
Alignment explanation
Indices: 852832--852892 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
852822 CTCGTATAAA
*
852832 TGCACCAAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
852855 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
852878 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
852893 TATAAGATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:858733 original size:23 final size:22
Alignment explanation
Indices: 858707--858775 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
858697 CACCACAGCT
858707 CGTATAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
* *
858730 CGTAGAATTGCACCGAAGTGCCG
1 CGTA-AAATGCACCGAAGTGCCA
* *
858753 CGTAAAATTACACCGTAGTGCCA
1 CGTAAAA-TGCACCGAAGTGCCA
858776 TATAAGATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:860812 original size:21 final size:21
Alignment explanation
Indices: 860786--860884 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
860776 AAACAGAGAT
860786 GGGATCGATCA-TTTCTTTTAA
1 GGGATCGATCATTTTC-TTTAA
*
860807 GGGATCGATCATTTTCTTTGA
1 GGGATCGATCATTTTCTTTAA
* **
860828 GGAATCGATCATTTTCTCCAA
1 GGGATCGATCATTTTCTTTAA
**
860849 GGGATCGATCATTTTCTCCAA
1 GGGATCGATCATTTTCTTTAA
* *
860870 GGGATCAATCCTTTT
1 GGGATCGATCATTTT
860885 GAAAAATTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 65 0.94
22 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
GGGATCGATCATTTTCTTTAA
Found at i:869163 original size:25 final size:25
Alignment explanation
Indices: 869135--869183 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
869125 AAACAATATG
869135 AACATAAAATAAAATAA-AATAAAAT
1 AACA-AAAATAAAATAACAATAAAAT
**
869160 AACAAAAATGGAATAACAATAAAA
1 AACAAAAATAAAATAACAATAAAA
869184 AGTTAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (25 bp):
AACAAAAATAAAATAACAATAAAAT
Found at i:869407 original size:25 final size:26
Alignment explanation
Indices: 869379--869427 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
869369 AATGGTCATT
*
869379 TTAAAAATTAAAATA-AATACATACA
1 TTAAAAATAAAAATACAATACATACA
*
869404 TTAAATATAAAAATACAATACATA
1 TTAAAAATAAAAATACAATACATA
869428 AAAGCATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (26 bp):
TTAAAAATAAAAATACAATACATACA
Found at i:871748 original size:40 final size:41
Alignment explanation
Indices: 871640--871748 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 41
871630 TAGGAATGGT
* *
871640 GATAACTCGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGG
1 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA--TAGG
* * *
871683 GTTAACGCGGCTCCTACGTGATGAGGA-GGTCTGGTTA-AGG
1 GATAACACGGTTCCTACGTGATGAGGACGG-CTGGTTATAGG
*
871723 GATGACACGGTTCCTACGTGATGAGG
1 GATAACACGGTTCCTACGTGATGAGG
871749 TTGGCTGATC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
40 25 0.44
42 2 0.04
43 30 0.53
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (41 bp):
GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATAGG
Found at i:872821 original size:5 final size:5
Alignment explanation
Indices: 872811--872844 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
872801 TTTATTTATT
872811 TTTTC TTTTC TTTTC TTTTC TTTT- TTTTC ATTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTT
872845 TCATTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 19 0.70
6 4 0.15
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:872831 original size:15 final size:15
Alignment explanation
Indices: 872811--872891 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 15
872801 TTTATTTATT
872811 TTTTCTTTTCTTTTC-
1 TTTTCTTTT-TTTTCA
872826 TTTTCTTTTTTTTCA
1 TTTTCTTTTTTTTCA
872841 TTTTTCATTTTTCATTT--
1 -TTTTC-TTTTT--TTTCA
*
872858 TTTTCATTTTTTTCA
1 TTTTCTTTTTTTTCA
*
872873 TTTTTCATTTTTTTCA
1 -TTTTCTTTTTTTTCA
872889 TTT
1 TTT
872892 GTTAATTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
13 3 0.05
14 5 0.09
15 16 0.28
16 25 0.44
17 5 0.09
19 3 0.05
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTTTTCA
Found at i:872844 original size:9 final size:9
Alignment explanation
Indices: 872816--872891 Score: 83
Period size: 9 Copynumber: 9.0 Consensus size: 9
872806 TTATTTTTTC
*
872816 TTTTCTTTT
1 TTTTCATTT
*
872825 CTTTTCTTTT
1 -TTTTCATTT
872835 TTTTCA--T
1 TTTTCATTT
872842 TTTTCA--T
1 TTTTCATTT
872849 TTTTCATTT
1 TTTTCATTT
872858 TTTTCATTT
1 TTTTCATTT
872867 TTTTCA--T
1 TTTTCATTT
872874 TTTTCATTT
1 TTTTCATTT
872883 TTTTCATTT
1 TTTTCATTT
872892 GTTAATTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
7 21 0.34
9 31 0.51
10 9 0.15
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCATTT
Found at i:872844 original size:25 final size:24
Alignment explanation
Indices: 872809--872891 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
872799 CATTTATTTA
*
872809 TTTTTTC-TTTTCTTTTCTTTTCTT
1 TTTTTTCATTTT-TTTTCTTTTCAT
**
872833 TTTTTTCATTTTTCAT-TTTTCAT
1 TTTTTTCATTTTTTTTCTTTTCAT
872856 TTTTTTCA-TTTTTTTCATTTTTCAT
1 TTTTTTCATTTTTTTTC--TTTTCAT
872881 TTTTTTCATTT
1 TTTTTTCATTT
872892 GTTAATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.10
23 14 0.29
24 9 0.18
25 19 0.39
26 2 0.04
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTTCATTTTTTTTCTTTTCAT
Found at i:872852 original size:16 final size:16
Alignment explanation
Indices: 872826--872902 Score: 95
Period size: 16 Copynumber: 4.8 Consensus size: 16
872816 TTTTCTTTTC
*
872826 TTTTCTTTTTTTTCAT
1 TTTTCATTTTTTTCAT
872842 TTTTCA--TTTTTCATTT
1 TTTTCATTTTTTTCA--T
872858 TTTTCATTTTTTTCAT
1 TTTTCATTTTTTTCAT
872874 TTTTCATTTTTTTCAT
1 TTTTCATTTTTTTCAT
*
872890 TTGTTAATTTTTT
1 TT-TTCATTTTTT
872903 AAGTGTAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.13
16 31 0.57
17 9 0.17
18 7 0.13
ACGTcount: A:0.12, C:0.10, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTCATTTTTTTCAT
Found at i:872862 original size:32 final size:33
Alignment explanation
Indices: 872816--872884 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
872806 TTATTTTTTC
* *
872816 TTTTCTTTTCTTTTCTTTTTTTTCATTTTTCAT
1 TTTTCATTTCTTTTCATTTTTTTCATTTTTCAT
872849 TTTTCATTT-TTTTCATTTTTTTCATTTTTCAT
1 TTTTCATTTCTTTTCATTTTTTTCATTTTTCAT
872881 TTTT
1 TTTT
872885 TTCATTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 26 0.76
33 8 0.24
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (33 bp):
TTTTCATTTCTTTTCATTTTTTTCATTTTTCAT
Found at i:872902 original size:25 final size:23
Alignment explanation
Indices: 872826--872901 Score: 107
Period size: 25 Copynumber: 3.2 Consensus size: 23
872816 TTTTCTTTTC
*
872826 TTTTCTTTTTTTTCATTTTTCAT
1 TTTTCATTTTTTTCATTTTTCAT
872849 TTTTCATTTTTTTCATTTTTTTCAT
1 TTTTCATTTTTTTCA--TTTTTCAT
*
872874 TTTTCATTTTTTTCATTTGTTAAT
1 TTTTCATTTTTTTCATTT-TTCAT
872898 TTTT
1 TTTT
872902 TAAGTGTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.35
24 8 0.17
25 23 0.48
ACGTcount: A:0.12, C:0.11, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTTCATTTTTTTCATTTTTCAT
Found at i:873026 original size:16 final size:16
Alignment explanation
Indices: 873005--873039 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
872995 GCCTTTTTTA
873005 CCACATAGGGACCTTC
1 CCACATAGGGACCTTC
873021 CCACATAGGGACCTTC
1 CCACATAGGGACCTTC
873037 CCA
1 CCA
873040 GTTTGGCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.40, G:0.17, T:0.17
Consensus pattern (16 bp):
CCACATAGGGACCTTC
Found at i:876845 original size:25 final size:25
Alignment explanation
Indices: 876817--876865 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
876807 AAACAATATG
876817 AACATAAAATAAAATAA-AATAAAAT
1 AACA-AAAATAAAATAACAATAAAAT
**
876842 AACAAAAATGGAATAACAATAAAA
1 AACAAAAATAAAATAACAATAAAA
876866 AATTAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (25 bp):
AACAAAAATAAAATAACAATAAAAT
Found at i:877075 original size:13 final size:13
Alignment explanation
Indices: 877053--877096 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
877043 TTTTAAAAAT
877053 TAAAATAAATACA
1 TAAAATAAATACA
* *
877066 TAACATAAATATA
1 TAAAATAAATACA
877079 -AAAATACAATACA
1 TAAAATA-AATACA
877092 TAAAA
1 TAAAA
877097 GCGTGTGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 5 0.20
13 16 0.64
14 4 0.16
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAATAAATACA
Found at i:880372 original size:9 final size:9
Alignment explanation
Indices: 880354--880391 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
880344 TATTTTTTTC
*
880354 TTTTCTTTT
1 TTTTCATTT
880363 TTTTCATTT
1 TTTTCATTT
880372 TTTTCA-TT
1 TTTTCATTT
880380 TTTTCATTT
1 TTTTCATTT
880389 TTT
1 TTT
880392 AAGTGTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTCATTT
Found at i:884767 original size:13 final size:13
Alignment explanation
Indices: 884745--884788 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
884735 TTTTAAAAAT
884745 TAAAATAAATACA
1 TAAAATAAATACA
* *
884758 TAACATAAATATA
1 TAAAATAAATACA
884771 -AAAATACAATACA
1 TAAAATA-AATACA
884784 TAAAA
1 TAAAA
884789 GCATGTGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 5 0.20
13 16 0.64
14 4 0.16
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAATAAATACA
Found at i:886684 original size:24 final size:23
Alignment explanation
Indices: 886656--886711 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
886646 TAATTGTATT
*
886656 AATAAAACGACAATAATAATAATA
1 AATAAAAAGA-AATAATAATAATA
* * *
886680 TATAACAAATAAATGATAATAATA
1 AATAA-AAAGAAATAATAATAATA
886704 AATAAAAA
1 AATAAAAA
886712 TGGATAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 3 0.12
24 20 0.77
25 3 0.12
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (23 bp):
AATAAAAAGAAATAATAATAATA
Found at i:886965 original size:21 final size:21
Alignment explanation
Indices: 886939--886991 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
886929 TTTAAGTATA
*
886939 AGTATCGATACTCATTCGTAG
1 AGTATCGATACTCATTCATAG
886960 AGTATCGATACTCATTCATAG
1 AGTATCGATACTCATTCATAG
886981 AGTATCGATAC
1 AGTATCGATAC
886992 CATAGGCCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (21 bp):
AGTATCGATACTCATTCATAG
Found at i:887306 original size:36 final size:36
Alignment explanation
Indices: 887258--887329 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
887248 TAAATTCTAG
* *
887258 GAATTTAGAAATACGATTGAGGATCCAAACCACTCC
1 GAATTTAAAAATACGATTGAGGAACCAAACCACTCC
887294 GAATTTAAAAATACGATTGAGGAACCAAACCACTCC
1 GAATTTAAAAATACGATTGAGGAACCAAACCACTCC
887330 TTACTCCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.21
Consensus pattern (36 bp):
GAATTTAAAAATACGATTGAGGAACCAAACCACTCC
Found at i:889961 original size:14 final size:14
Alignment explanation
Indices: 889942--889970 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
889932 CCTGGGGAAG
889942 ATGCTTTCATCGTT
1 ATGCTTTCATCGTT
889956 ATGCTTTCATCGTT
1 ATGCTTTCATCGTT
889970 A
1 A
889971 ACATATACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (14 bp):
ATGCTTTCATCGTT
Found at i:891601 original size:2 final size:2
Alignment explanation
Indices: 891594--891637 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
891584 TGACCTGAAT
891594 TA TA TA TA -A TA TA -A T- 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
891633 TA TA T
1 TA TA T
891638 TAACTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:891675 original size:25 final size:28
Alignment explanation
Indices: 891645--891705 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 28
891635 TATTAACTTG
891645 AAATATTTTTA-TATCAACTT-A-TTAA
1 AAATATTTTTATTATCAACTTAATTTAA
* *
891670 ATATA-TTTTATTATTAACTTAATTTAA
1 AAATATTTTTATTATCAACTTAATTTAA
891697 AAATATTTT
1 AAATATTTT
891706 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.17
25 12 0.41
26 1 0.03
27 8 0.28
28 3 0.10
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
AAATATTTTTATTATCAACTTAATTTAA
Found at i:891683 original size:27 final size:27
Alignment explanation
Indices: 891645--891729 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
891635 TATTAACTTG
*
891645 AAATATTTT-TATATCAACTT-A-TTAA
1 AAATATTTTAT-TATTAACTTAATTTAA
*
891670 ATATATTTTATTATTAACTTAATTTAA
1 AAATATTTTATTATTAACTTAATTTAA
* * * *
891697 AAATATTTTATTTTTAAATTCATTTGA
1 AAATATTTTATTATTAACTTAATTTAA
891724 AAATAT
1 AAATAT
891730 ATAATTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.32
26 2 0.04
27 32 0.64
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (27 bp):
AAATATTTTATTATTAACTTAATTTAA
Found at i:897805 original size:110 final size:110
Alignment explanation
Indices: 897610--898094 Score: 794
Period size: 110 Copynumber: 4.4 Consensus size: 110
897600 GATGGTGGTT
* * * *
897610 GCTCAACTTCACAGCAAAGGGGCAATTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
897675 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
897720 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
897785 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
* *
897830 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAATAA-TTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* **
897894 AATTTCAACTTCACAATGAATGG-TATCAGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAA-GGATATTGGACTCGAGACAACACAA
*
897939 GCTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * *
898004 AGTTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
* *
898049 GCTGAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTT
898095 CCCAGAGAAG
Statistics
Matches: 347, Mismatches: 25, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
109 99 0.29
110 248 0.71
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
Found at i:897990 original size:219 final size:220
Alignment explanation
Indices: 897610--898094 Score: 821
Period size: 219 Copynumber: 2.2 Consensus size: 220
897600 GATGGTGGTT
* ** * *
897610 GCTCAACTTCACAGCAAAGGGGCAATTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
**
897675 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGG
66 AATTTCAACTTCACAACGAAGGATATCAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGG
897740 GGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAA
131 GGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAA
*
897805 GGATATTGGACTCAAGACAACACAA
196 AGATATTGGACTCAAGACAACACAA
*
897830 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAATAA-TTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
897894 AATTTCAACTTCACAATGAATGG-TATCAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
66 AATTTCAACTTCACAACGAA-GGATATCAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
* *
897958 GGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAGTTTCAACTTCACAGCGA
130 GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGA
*
898023 AAGATATTGGACTCGAGACAACACAA
195 AAGATATTGGACTCAAGACAACACAA
*
898049 GCTGAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTT
1 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTT
898095 CCCAGAGAAG
Statistics
Matches: 248, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
219 207 0.83
220 41 0.17
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (220 bp):
GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAACGAAGGATATCAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGG
GGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAA
AGATATTGGACTCAAGACAACACAA
Found at i:898534 original size:84 final size:84
Alignment explanation
Indices: 898266--899024 Score: 741
Period size: 84 Copynumber: 9.1 Consensus size: 84
898256 GATATCATGT
* * * *
898266 TCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* * *
898331 CGCTAAGCTCCAA-GGCATA
66 CACTCAGCT-CAAGGGCACA
* * * * *
898350 TCATTTGCATCATAAATTAAGTCGAGAAGGGCTATTTG----CCAAAGACCCTTGAGTTCGATTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* * *
898411 CACTCAACTTCGAGGTCACA
66 CACTCAGC-TCAAGGGCACA
* *
898431 TCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* * * *
898496 CGCTCAGCTCAATGACAAA
66 CACTCAGCTCAAGGGCACA
* * * * * **
898515 TCATTTGCAGCATAGCTTAAGTTGAGAAGGGTTATATGCCAGCCAAAGACCCTCAAGTTCGATTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* *
898580 CACTTAGCTTCGAGGGCACA
66 CACTCAGC-TCAAGGGCACA
* * * *
898600 TCATTTGCATCATAACTTAAGTCGAGAAGGGTTAACTGCCAACCAAAGACCTTTGAGTTCAACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* *
898665 CGCTCAGCTCCAA-GGCATA
66 CACTCAGCT-CAAGGGCACA
* * * **
898684 TCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCAAGTTCGATTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
** *
898745 CACTCAGCTTTGATGGCACA
66 CACTCAGC-TCAAGGGCACA
* * * *
898765 TCATTTGCAGCATAACATAGGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* * * *
898830 -AGCTTAACTCAACGACACA
66 CA-CTCAGCTCAAGGGCACA
* * * * * * *
898849 TCATTTGCAACATAGCTTAAGTTGAGAAGGGCTATATGCCAACCAAAAACCTTCGAGTTCGATTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
*
898914 CACTCTGCTTCAAGGGCACA
66 CACTCAGC-TCAAGGGCACA
* * * * * *
898934 TCATTTGCAGTATAACTCAAGGCTAAAAGGGTTATCTGCCAA-CAAAGACCTGTGAGTTCGATTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
* * **
898998 TACTCAGCTCAACGGCTTA
66 CACTCAGCTCAAGGGCACA
899017 TCATTTGC
1 TCATTTGC
899025 GGTATAGCTC
Statistics
Matches: 539, Mismatches: 119, Indels: 35
0.78 0.17 0.05
Matches are distributed among these distances:
80 53 0.10
81 77 0.14
83 16 0.03
84 232 0.43
85 161 0.30
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (84 bp):
TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTA
CACTCAGCTCAAGGGCACA
Found at i:898544 original size:165 final size:164
Alignment explanation
Indices: 898266--899060 Score: 944
Period size: 165 Copynumber: 4.8 Consensus size: 164
898256 GATATCATGT
* * *
898266 TCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
* * * **
898331 CGCTAAGCTCCAAGGCATATCATTTGCATCATAAATTAAGTCGAGAAGGGCTATTTGCCAAAGAC
66 CGCTCAGCT-CAAGACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGAC
** * *
898396 CCTTGAGTTCGATTACACTCAACTTCGAGGTCACA
130 CCTCAAGTTCGATTACACTCAGCTTCGAGGGCACA
*
898431 TCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
* * * *
898496 CGCTCAGCTCAATGACAAATCATTTGCAGCATAGCTTAAGTTGAGAAGGGTTATATGCCAGCCAA
66 CGCTCAGCTCAA-GACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-T---TGCCAA
*
898561 AGACCCTCAAGTTCGATTACACTTAGCTTCGAGGGCACA
126 AGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACA
* * *
898600 TCATTTGCATCATAACTTAAGTCGAGAAGGGTTAACTGCCAACCAAAGACCTTTGAGTTCAACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
* *
898665 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCT-CAAGACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGAC
* *
898730 CCTCAAGTTCGATTACACTCAGCTTTGATGGCACA
130 CCTCAAGTTCGATTACACTCAGCTTCGAGGGCACA
* * *
898765 TCATTTGCAGCATAACATAGGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
* * * * * * *
898830 AGCTTAACTCAACGACACATCATTTGCAACATAGCTTAAGTTGAGAAGGGCTATATGCCAACCAA
66 CGCTCAGCTCAA-GACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTG----CCAA
* * * * *
898895 AAACCTTCGAGTTCGATTACACTCTGCTTCAAGGGCACA
126 AGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACA
* * * * * * *
898934 TCATTTGCAGTATAACTCAAGGCTAAAAGGGTTATCTGCCAA-CAAAGACCTGTGAGTTCGATTA
1 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
** * * * * * * * * *
898998 TACTCAGCTCAACGGCTTATCATTTGCGGTATAGCTCAAGGCTAAAAGGGCTATCTGCCAAAG
66 CGCTCAGCTCAA-GACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAG
899061 GCCTTCGAGT
Statistics
Matches: 540, Mismatches: 79, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
164 11 0.02
165 248 0.46
166 1 0.00
168 61 0.11
169 216 0.40
170 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (164 bp):
TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
CGCTCAGCTCAAGACATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACC
CTCAAGTTCGATTACACTCAGCTTCGAGGGCACA
Found at i:898875 original size:334 final size:334
Alignment explanation
Indices: 898266--899100 Score: 1106
Period size: 334 Copynumber: 2.5 Consensus size: 334
898256 GATATCATGT
* * * *
898266 TCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
* * ** *
898331 CGCTAAGCTCCAAGGCATATCATTTGCATCATAAATTAAGTCGAGAAGGGCTATTTGCCAAAGAC
66 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
** *
898396 CCTTGAGTTCGATTACACTCAACTTCGAGGTCACATCATTTGCAGCATAACTTAAGTCGAGAAAG
131 CCTCAAGTTCGATTACACTCAACTTCGAGGTCACATCATTTGCAGCATAACATAAGTCGAGAAAG
* * * *
898461 GTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAATGACAAATCATTTGCAGC
196 GTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAAGCTCAACTCAACGACAAATCATTTGCAAC
* * *
898526 ATAGCTTAAGTTGAGAAGGGTTATATGCCAGCCAAAGACCCTCAAGTTCGATTACACT-TAGCTT
261 ATAGCTTAAGTTGAGAAGGGCTATATGCCAACCAAAAACCCTCAAGTTCGATTACACTCT-GCTT
*
898590 CGAGGGCACA
325 CAAGGGCACA
* *
898600 TCATTTGCATCATAACTTAAGTCGAGAAGGGTTAACTGCCAACCAAAGACCTTTGAGTTCAACTA
1 TCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
898665 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* * * *
898730 CCTCAAGTTCGATTACACTCAGCTTTGATGG-CACATCATTTGCAGCATAACATAGGTCGAGAAG
131 CCTCAAGTTCGATTACACTCAACTTCGA-GGTCACATCATTTGCAGCATAACATAAGTCGAGAAA
* * *
898794 GGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTAAGCTTAACTCAACGACACATCATTTGCAA
195 GGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAAGCTCAACTCAACGACAAATCATTTGCAA
* *
898859 CATAGCTTAAGTTGAGAAGGGCTATATGCCAACCAAAAACCTTCGAGTTCGATTACACTCTGCTT
260 CATAGCTTAAGTTGAGAAGGGCTATATGCCAACCAAAAACCCTCAAGTTCGATTACACTCTGCTT
898924 CAAGGGCACA
325 CAAGGGCACA
* * * * * *
898934 TCATTTGCAGT-ATAACTCAAGGCTAAAAGGGTTATCTGCCAA-CAAAGACCTGTGAGTTCGATT
1 TCATTTGCA-TCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACT
** * * * * * * *
898997 ATACTCAGCT-CAACGGCTTATCATTTGCGGTATAGCTCAAGGCTAAAAGGGCTATCTGCCAAAG
65 ACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
* * * * * * * *
899061 GCCTTCGAGTTTGACTACGCTCAACTCCAAGG-CACATCAT
129 ACCCTCAAGTTCGATTACACTCAACTTCGAGGTCACATCAT
899101 CTACAACATA
Statistics
Matches: 439, Mismatches: 58, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
332 13 0.03
333 89 0.20
334 333 0.76
335 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (334 bp):
TCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTA
CGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
CCTCAAGTTCGATTACACTCAACTTCGAGGTCACATCATTTGCAGCATAACATAAGTCGAGAAAG
GTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAAGCTCAACTCAACGACAAATCATTTGCAAC
ATAGCTTAAGTTGAGAAGGGCTATATGCCAACCAAAAACCCTCAAGTTCGATTACACTCTGCTTC
AAGGGCACA
Found at i:900797 original size:10 final size:10
Alignment explanation
Indices: 900782--900806 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
900772 ATCCTCTAAG
900782 TTTTTTTATT
1 TTTTTTTATT
900792 TTTTTTTATT
1 TTTTTTTATT
900802 TTTTT
1 TTTTT
900807 CTTTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:900937 original size:4 final size:4
Alignment explanation
Indices: 900923--900973 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
900913 TTTCCTTTTG
* **
900923 ATTT A-TT ATTT ATTT ATTTT ATTT ACTT A-AC ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
900970 ATTT
1 ATTT
900974 TATCTAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 4 0.10
4 31 0.79
5 4 0.10
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:900975 original size:28 final size:28
Alignment explanation
Indices: 900928--900985 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
900918 TTTTGATTTA
900928 TTATTTATTTATTTTATTTA-CTTAACAT
1 TTATTTATTTATTTTATTTATC-TAACAT
900956 TTATTTATTTA-TTTATTTTATCTAACAT
1 TTATTTATTTATTTTA-TTTATCTAACAT
900984 TT
1 TT
900986 TCGATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 4 0.14
28 23 0.82
29 1 0.04
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (28 bp):
TTATTTATTTATTTTATTTATCTAACAT
Found at i:904207 original size:20 final size:20
Alignment explanation
Indices: 904167--904251 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
904157 AACTTTCCAA
*
904167 ATTCATAA-TTTA-TTTCGG
1 ATTCATAACTTTACTTTCAG
*
904185 ATTCATAGCTTTACTTTCAG
1 ATTCATAACTTTACTTTCAG
904205 ATTCATAACTTTACTTTCAG
1 ATTCATAACTTTACTTTCAG
*
904225 ATTCATAACTTTACTTTTAG
1 ATTCATAACTTTACTTTCAG
904245 ATTCATA
1 ATTCATA
904252 GCCCAATGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
18 7 0.11
19 4 0.07
20 50 0.82
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTCATAACTTTACTTTCAG
Found at i:908922 original size:20 final size:21
Alignment explanation
Indices: 908897--908948 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
908887 TTTTCCCAAT
*
908897 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
908917 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
908938 TCGCAATGCGA
1 TCGCAATGCGA
908949 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:908962 original size:20 final size:20
Alignment explanation
Indices: 908937--909050 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
908927 AATTGGGAAA
*
908937 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
908957 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
908977 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
908998 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
909018 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
909038 TTCGCAACGCGAT
1 ATCGCAACGCGAT
909051 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:908981 original size:61 final size:61
Alignment explanation
Indices: 908934--909050 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
908924 GCGAATTGGG
* * * * *
908934 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
908995 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
909051 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:909627 original size:19 final size:19
Alignment explanation
Indices: 909567--909647 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
909557 TTCGAGAATG
909567 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
909587 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
909603 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
909620 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
909639 AAAATCGCA
1 AAAATCGCA
909648 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:909665 original size:19 final size:19
Alignment explanation
Indices: 909643--909827 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
909633 GAAACCAAAA
*
909643 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
909662 TCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
909681 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
909700 TCGCGGTTGCGATTTTTATT
1 TCGC-GTTGCGATTTTCATT
*
909720 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* ***
909736 T-G-GTCGCGAAAGTCATT
1 TCGCGTTGCGATTTTCATT
909753 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
909767 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
909786 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
909806 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
909826 TC
1 TC
909828 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 57 0.42
20 50 0.37
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:909725 original size:39 final size:38
Alignment explanation
Indices: 909643--909827 Score: 147
Period size: 33 Copynumber: 5.1 Consensus size: 38
909633 GAAACCAAAA
* *
909643 TCGCATTGCGATTTTCATTTCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
909681 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * ***
909720 TCGCGTTGCGATTGTC---T-G-GTCGCGAAAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
909753 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
909786 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
909826 TC
1 TC
909828 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
31 3 0.03
33 35 0.29
34 10 0.08
35 1 0.01
36 3 0.03
38 21 0.18
39 28 0.24
40 18 0.15
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:909804 original size:20 final size:20
Alignment explanation
Indices: 909770--909827 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
909760 GCGATTCTCT
**
909770 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
909790 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
909810 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
909828 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:910828 original size:20 final size:19
Alignment explanation
Indices: 910793--910859 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
910783 GAAACTTAAA
910793 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
910812 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
910832 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
910851 ATCGCAACG
1 ATCGCAACG
910860 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:910867 original size:14 final size:14
Alignment explanation
Indices: 910848--910905 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
910838 ATGCGAAATG
910848 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
910862 AAAATCGCAATTCGAA
1 AAAATCGCAA--CGAC
910878 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
910894 AAAATCGCAACG
1 AAAATCGCAACG
910906 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:910890 original size:32 final size:33
Alignment explanation
Indices: 910832--910910 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
910822 GGAAATGGCT
910832 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
910865 ATCGCAATTCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
910897 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
910911 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:910958 original size:14 final size:14
Alignment explanation
Indices: 910939--910996 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
910929 TTTCATTTCG
910939 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
910953 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
910969 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
910985 CGTTGCGATTTT
1 CGTTGCGATTTT
910997 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:911003 original size:33 final size:33
Alignment explanation
Indices: 910922--911012 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
910912 ACAAATCGCA
*
910922 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
910955 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
910987 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
911013 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:911031 original size:20 final size:19
Alignment explanation
Indices: 910997--911051 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
910987 TTGCGATTTT
*
910997 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
911016 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
911036 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
911052 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:911553 original size:18 final size:18
Alignment explanation
Indices: 911527--911571 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
911517 GTCGATCAGA
911527 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
*
911545 TGATAGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
911563 TGATGGCTC
1 TGATGGCTC
911572 CCGAAGTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGTGAGG
Found at i:912916 original size:20 final size:20
Alignment explanation
Indices: 912891--912928 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
912881 AATAGTTTCT
912891 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
912911 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
912929 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:913219 original size:22 final size:22
Alignment explanation
Indices: 913192--913235 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
913182 GATGGAGATA
913192 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
913214 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
913236 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:913448 original size:20 final size:20
Alignment explanation
Indices: 913423--913475 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
913413 GATTATGTAT
*
913423 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
913443 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
913463 TATCTCGTTGCGA
1 TATCGCGTTGCGA
913476 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:913510 original size:21 final size:21
Alignment explanation
Indices: 913486--913599 Score: 151
Period size: 21 Copynumber: 5.5 Consensus size: 21
913476 TTTTTTATTA
913486 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
913507 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
913527 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
913548 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* **
913569 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
913589 TCGCATTGCGA
1 TCGCATTGCGA
913600 ATTGGGAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
20 33 0.41
21 48 0.59
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:913531 original size:41 final size:40
Alignment explanation
Indices: 913468--913582 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 40
913458 GTAAGTATCT
*
913468 CGTTGCGATTTTTTATTATCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTCTTA-T-TCGCATTGCGATTTTCCCAATTCG
913510 CGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTT-CTTATTCGCATTGCGATTTTCCCAATTCG
* **
913551 CATTGCGATTTTCCCAATTCGCATTGCGATTT
1 CGTTGCGA-TTT-CTTATTCGCATTGCGATTT
913583 ACTTATTCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 31 0.47
42 32 0.48
43 3 0.05
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (40 bp):
CGTTGCGATTTCTTATTCGCATTGCGATTTTCCCAATTCG
Found at i:913614 original size:62 final size:62
Alignment explanation
Indices: 913485--913614 Score: 197
Period size: 62 Copynumber: 2.1 Consensus size: 62
913475 ATTTTTTATT
* * * *
913485 ATCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAA
1 ATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGCCAAA
* **
913547 TTCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAAA
1 ATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGCCAAA
913609 ATCGCA
1 ATCGCA
913615 ACGATACTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (62 bp):
ATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTGCCAAA
Found at i:920897 original size:28 final size:28
Alignment explanation
Indices: 920857--920913 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
920847 CCTGAACTTT
* * *
920857 TTCAAAATTTATACTTTGGTCACCAAAC
1 TTCAAAAATTATAATTTGATCACCAAAC
*
920885 TTCAAAAATTATAATTTGATCACTAAAC
1 TTCAAAAATTATAATTTGATCACCAAAC
920913 T
1 T
920914 AAATCCATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (28 bp):
TTCAAAAATTATAATTTGATCACCAAAC
Found at i:922299 original size:19 final size:20
Alignment explanation
Indices: 922275--922319 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
922265 AAAATAATCC
*
922275 AATTTC-ACATTCTAACATT
1 AATTTCAACACTCTAACATT
922294 AATTTCAACACTCTAACATT
1 AATTTCAACACTCTAACATT
922314 AATTTC
1 AATTTC
922320 CAGCATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTCAACACTCTAACATT
Found at i:927427 original size:58 final size:58
Alignment explanation
Indices: 927337--927491 Score: 301
Period size: 58 Copynumber: 2.7 Consensus size: 58
927327 TTACACACTA
927337 GCAACATAATGCAAATCAAATTCCATGCATGCATGCATGCATGTCTCACTCTACTCTG
1 GCAACATAATGCAAATCAAATTCCATGCATGCATGCATGCATGTCTCACTCTACTCTG
*
927395 GCAACATAACGCAAATCAAATTCCATGCATGCATGCATGCATGTCTCACTCTACTCTG
1 GCAACATAATGCAAATCAAATTCCATGCATGCATGCATGCATGTCTCACTCTACTCTG
927453 GCAACATAATGCAAATCAAATTCCATGCATGCATGCATG
1 GCAACATAATGCAAATCAAATTCCATGCATGCATGCATG
927492 TCTCACTCTA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 95 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (58 bp):
GCAACATAATGCAAATCAAATTCCATGCATGCATGCATGCATGTCTCACTCTACTCTG
Found at i:927659 original size:17 final size:17
Alignment explanation
Indices: 927637--927669 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
927627 GTAGAAAGCC
927637 ATAGCTTTTCTTTAGCT
1 ATAGCTTTTCTTTAGCT
927654 ATAGCTTTTCTTTAGC
1 ATAGCTTTTCTTTAGC
927670 CATCTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (17 bp):
ATAGCTTTTCTTTAGCT
Found at i:932059 original size:23 final size:23
Alignment explanation
Indices: 932028--932076 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 23
932018 ATTATTTTTA
932028 ATATATATATTTTTTAATAAAATTT
1 ATATATA-ATTTTTT-ATAAAATTT
932053 ATATATAATTTTTTATAAAATTT
1 ATATATAATTTTTTATAAAATTT
932076 A
1 A
932077 AAAGATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.42
24 7 0.29
25 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATAATTTTTTATAAAATTT
Found at i:932084 original size:24 final size:24
Alignment explanation
Indices: 932036--932084 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
932026 TAATATATAT
* *
932036 ATTTTTTAATAAAATTTATATATA
1 ATTTTTTAATAAAATTTAAAGATA
932060 ATTTTTT-ATAAAATTTAAAAGATA
1 ATTTTTTAATAAAATTT-AAAGATA
932084 A
1 A
932085 ATGAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTTTTTAATAAAATTTAAAGATA
Found at i:941255 original size:76 final size:76
Alignment explanation
Indices: 941129--941281 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
941119 TAAAAACAAT
941129 TTATGCCGTTATGTATGATTGTAATAAACAATAGTATATATAAATAATAAAATTAAAAATCAAAT
1 TTATGCCGTTATGTATGATTGTAATAAACAATAGTATATATAAATAATAAAATTAAAAATCAAAT
941194 CAAATTTTTAG
66 CAAATTTTTAG
941205 TTATGCCGTTATGTATGATTGTAATAAACAATAGTATATATAAATAATAAAATTAAAAATCAAAT
1 TTATGCCGTTATGTATGATTGTAATAAACAATAGTATATATAAATAATAAAATTAAAAATCAAAT
941270 CAAATTTTTAG
66 CAAATTTTTAG
941281 T
1 T
941282 AATTAAGAGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (76 bp):
TTATGCCGTTATGTATGATTGTAATAAACAATAGTATATATAAATAATAAAATTAAAAATCAAAT
CAAATTTTTAG
Found at i:941616 original size:21 final size:21
Alignment explanation
Indices: 941591--941631 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
941581 TATATAATAG
941591 ATAGATTTTGAATTTATTAAT
1 ATAGATTTTGAATTTATTAAT
941612 ATAGATTTTGAATTTATTAA
1 ATAGATTTTGAATTTATTAA
941632 CTGATTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (21 bp):
ATAGATTTTGAATTTATTAAT
Found at i:943647 original size:19 final size:20
Alignment explanation
Indices: 943618--943664 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
943608 AATAATTTTC
* *
943618 TTTTG-AAAGCAAATTG-GA
1 TTTTGAAAAGCAAAATGAAA
943636 TTTTGAAAAGCAAAATGAAA
1 TTTTGAAAAGCAAAATGAAA
943656 TTTTGAAAA
1 TTTTGAAAA
943665 ATGATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
20 10 0.40
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (20 bp):
TTTTGAAAAGCAAAATGAAA
Found at i:948745 original size:71 final size:71
Alignment explanation
Indices: 948629--948771 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
948619 TTTTACCTTT
948629 CGTTTGTTTCTCTTTACTCTTCACTTGCATGCGTTGTTAATCGCGTTTTCTTTGCTTGAGAATCC
1 CGTTTGTTTCTCTTTACTCTTCACTTGCATGCGTTGTTAATCGCGTTTTCTTTGCTTGAGAATCC
948694 CAAAGA
66 CAAAGA
948700 CGTTTGTTTCTCTTTACTCTTCACTTGCATGCGTTGTTAATCGCGTTTTCTTTGCTTGAGAATCC
1 CGTTTGTTTCTCTTTACTCTTCACTTGCATGCGTTGTTAATCGCGTTTTCTTTGCTTGAGAATCC
948765 CAAAGA
66 CAAAGA
948771 C
1 C
948772 AAATGTTTTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (71 bp):
CGTTTGTTTCTCTTTACTCTTCACTTGCATGCGTTGTTAATCGCGTTTTCTTTGCTTGAGAATCC
CAAAGA
Found at i:949065 original size:2 final size:2
Alignment explanation
Indices: 949060--949097 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
949050 ATTTTTTATT
949060 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
949098 GTATTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:949169 original size:27 final size:26
Alignment explanation
Indices: 949153--949205 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
949143 TTTTGTTTTT
949153 TTATTCATTACTATTATTTTTTTAATAC
1 TTATT-ATTACTATTATTTTTTT-ATAC
949181 TTATTATTACTATTA-TTTTTTATAC
1 TTATTATTACTATTATTTTTTTATAC
949206 CTTGTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 4 0.16
26 6 0.24
27 10 0.40
28 5 0.20
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATTATTACTATTATTTTTTTATAC
Found at i:949175 original size:24 final size:25
Alignment explanation
Indices: 949139--949201 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
949129 ATAATTTCTT
* *
949139 TTATTTTTGTTTTTTTATTCATTACTA
1 TTATTTTT-TTATATTATT-ATTACTA
949166 TTATTTTTTTAATACTTATTATTACTA
1 TTATTTTTTT-ATA-TTATTATTACTA
949193 TTATTTTTT
1 TTATTTTTT
949202 ATACCTTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 25 0.78
28 5 0.16
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (25 bp):
TTATTTTTTTATATTATTATTACTA
Found at i:949229 original size:2 final size:2
Alignment explanation
Indices: 949222--949252 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
949212 TATAAGTTAT
949222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
949253 TCATATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:952679 original size:15 final size:14
Alignment explanation
Indices: 952631--952684 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
952621 CAATCATAAC
952631 AAAAAAGAGAAAAA
1 AAAAAAGAGAAAAA
*
952645 AAGCAAAGAG--AAA
1 AA-AAAAGAGAAAAA
*
952658 ATAAAAGAGAAAAA
1 AAAAAAGAGAAAAA
952672 AAATAAAG-GAAAA
1 AAA-AAAGAGAAAA
952685 TTGAAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.19
13 4 0.12
14 12 0.38
15 10 0.31
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAAAGAGAAAAA
Found at i:952696 original size:26 final size:27
Alignment explanation
Indices: 952633--952685 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
952623 ATCATAACAA
*
952633 AAAAGAGAAAAAAAGCAAAGAGAAAAT
1 AAAAGAGAAAAAAAACAAAGAGAAAAT
*
952660 AAAAGAGAAAAAAAATAAAG-GAAAAT
1 AAAAGAGAAAAAAAACAAAGAGAAAAT
952686 TGAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (27 bp):
AAAAGAGAAAAAAAACAAAGAGAAAAT
Found at i:952875 original size:69 final size:69
Alignment explanation
Indices: 952757--952894 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 69
952747 GATTCAAACT
* * *
952757 ATGAGATTGATCAAGCATAATTATTTCCAAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATAAAGCATAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
952822 TCAA
66 TCAA
* **
952826 ATGAGATTGATAAAGCATAATCATTTCTGAAAT-ACTGAATTACTCCACTCGAAGATCATAGAGC
1 ATGAGATTGATAAAGCATAATCATTTC-CAAATCACTGAACCACTCCACTCGAAGATCATAGAGC
952890 ATCAA
65 ATCAA
952895 GAGAGAGAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
69 58 0.94
70 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATAAAGCATAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:953886 original size:32 final size:32
Alignment explanation
Indices: 953807--953894 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 32
953797 GACATCTTTG
*
953807 AAGATTCAACATCAAATGTTGGGGCATTTTTT
1 AAGATTCAACATCAAATATTGGGGCATTTTTT
953839 -AG-TT-AACATCAAATATTGGGGCATTTTTT
1 AAGATTCAACATCAAATATTGGGGCATTTTTT
*
953868 AAGATTCAACATCGAATATTGGGGCAT
1 AAGATTCAACATCAAATATTGGGGCAT
953895 CTTTGGGAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
29 24 0.47
30 4 0.08
31 4 0.08
32 19 0.37
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (32 bp):
AAGATTCAACATCAAATATTGGGGCATTTTTT
Found at i:953907 original size:32 final size:30
Alignment explanation
Indices: 953810--953912 Score: 109
Period size: 32 Copynumber: 3.3 Consensus size: 30
953800 ATCTTTGAAG
* *
953810 ATTCAACATCAAATGTTGGGGCATTTTTTA
1 ATTCAACATCAAATATTGGGGCATTTTTAA
*
953840 GTT-AACATCAAATATTGGGGCATTTTTTAA
1 ATTCAACATCAAATATTGGGGCA-TTTTTAA
* **
953870 GATTCAACATCGAATATTGGGGCATCTTTGGGA
1 -ATTCAACATCAAATATTGGGGCAT-TTT-TAA
953903 ATTCAACATC
1 ATTCAACATC
953913 CTTATGCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 18 0.30
30 8 0.13
31 3 0.05
32 31 0.51
33 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (30 bp):
ATTCAACATCAAATATTGGGGCATTTTTAA
Found at i:954618 original size:106 final size:106
Alignment explanation
Indices: 954490--954706 Score: 281
Period size: 106 Copynumber: 2.0 Consensus size: 106
954480 ATATCGTGCC
* *
954490 ACTCGAGACAACACAAGTTCAACTCCACAACGAAGGGACGACTGGTTGACAACAAACAATTTCCC
1 ACTCGAGACAACACAAGCTCAACTCCACAACGAAGGGACGACTGGCTGACAACAAACAATTTCCC
*
954555 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * ** * * * **
954596 ACTCGAGATAGCACAAGCTCAACTTTACAACGAAGGGGCGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGCTCAACTCCACAACGAAGGGACGACTGGCTGACAACAAACAATTTCCC
* * ** *
954661 AGTTCCAGAGCCAATTTTAACTTCACGTCGGAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
954702 ACTCG
1 ACTCG
954707 GAACAATACA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGCTCAACTCCACAACGAAGGGACGACTGGCTGACAACAAACAATTTCCC
AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:955042 original size:37 final size:37
Alignment explanation
Indices: 954991--955176 Score: 115
Period size: 37 Copynumber: 5.3 Consensus size: 37
954981 GAAAACATTC
* * * **
954991 CCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAGTTT
1 CCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTT
*
955027 CCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTT
1 CCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTT
* * * * *
955064 CTCTTGAAACATAA----A----CATTGA-AAATATTT
1 CCCTTGAAACAAAATTTTATCTCCCTTGAGACA-GTTT
* ** * * *
955093 CCTTTGAAA-TGAATTTTTTCTCTCTTGAGATAGTTT
1 CCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTT
*
955129 CCCTTGAAACAAAATTTTATCTCCCTTGAGATAGTTT
1 CCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTT
*
955166 CTCTTGAAACA
1 CCCTTGAAACA
955177 TAAACCTTGA
Statistics
Matches: 111, Mismatches: 27, Indels: 23
0.69 0.17 0.14
Matches are distributed among these distances:
28 4 0.04
29 15 0.14
36 24 0.22
37 68 0.61
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (37 bp):
CCCTTGAAACAAAATTTTATCTCCCTTGAGACAGTTT
Found at i:955069 original size:102 final size:102
Alignment explanation
Indices: 954936--955203 Score: 419
Period size: 102 Copynumber: 2.6 Consensus size: 102
954926 TTTTAGAACT
* * *
954936 AAATTTTGTCTCCCTTGAGATAGTTTATCTTGAAACATAAACATTGAAAACATTCCCCTTGAAAT
1 AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAAT
* *
955001 AAATTTTATCTCGCTTGGGGTAGTTTCCCTTGAAACA
66 AAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
* *
955038 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCTTTGAAAT
1 AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAAT
* * *
955103 GAATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACA
66 AAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
* * *
955140 AAATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACATAAACCTTGAAAATGTTTCCCTTGAAA
1 AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAA
955204 CACAAAATAT
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 151 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (102 bp):
AAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAAT
AAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACA
Found at i:955137 original size:36 final size:37
Alignment explanation
Indices: 955104--955176 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
955094 CTTTGAAATG
* *
955104 AATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAA
*
955141 AATTTTATCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACA
955177 TAAACCTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.42
Consensus pattern (37 bp):
AATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:955376 original size:37 final size:36
Alignment explanation
Indices: 955322--955437 Score: 121
Period size: 36 Copynumber: 3.2 Consensus size: 36
955312 TACCTTTTCC
*
955322 TTGAAACAAA-TTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTT
* **
955357 TT-AGAACTAAGTTTTGTCTCTTTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCCCTTGAGACAGTTTCTT
* * *
955394 TTGAAACAAATTTTG-CCCCTCTTGAGACAATTTCTC
1 TTGAAACAAATTTTGTCTCC-CTTGAGACAGTTTCTT
955430 TTGAAACA
1 TTGAAACA
955438 CAAAAAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
34 1 0.02
35 7 0.11
36 30 0.45
37 27 0.41
38 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTT
Found at i:955503 original size:41 final size:42
Alignment explanation
Indices: 955435--955515 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
955425 TTCTCTTGAA
*
955435 ACACAAAAAAAAACTATCGAAATTGTTTCTCTTGAAACACAC
1 ACACAAAAAAAAACTATCGAAAATGTTTCTCTTGAAACACAC
* * *
955477 ACACACAAAAAACCT-TTGAAAATGTTTCTCTTGAAACAC
1 ACACAAAAAAAAACTATCGAAAATGTTTCTCTTGAAACAC
955516 CAAACCCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (42 bp):
ACACAAAAAAAAACTATCGAAAATGTTTCTCTTGAAACACAC
Found at i:956729 original size:4 final size:4
Alignment explanation
Indices: 956693--956919 Score: 91
Period size: 4 Copynumber: 56.8 Consensus size: 4
956683 TATTATCAAT
* * * * *
956693 TTTA TTAA TTTA TCTA TATA TATA TTTA -CTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
956740 TTATA TTATT TTTA CTTT- TTTA -TTA -TTA TTTTA TTTA TTTA TTTA
1 TT-TA TT-TA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
* * * *
956785 TTTTA TTTA TTTA TTT- TTTC CTT- TTTC TTTA TTT- TTT- TATA TTTA
1 -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
956830 TTTTA CTTA -CTA TTTTA TCT- TTTC TTTC TTTA TCTTA TAT- TTTA TTTAA
1 -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTT-A
* * *
956879 TTTG TTT- TTTC TTCA TTTTAA TTTAA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTT-A TTT-A TTTA TTTA TTTA TTT
956920 CTTACCTTTT
Statistics
Matches: 177, Mismatches: 26, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
3 30 0.17
4 104 0.59
5 42 0.24
6 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:956763 original size:17 final size:17
Alignment explanation
Indices: 956722--956832 Score: 86
Period size: 18 Copynumber: 6.3 Consensus size: 17
956712 ATATATTTAC
*
956722 TATTTATT-TATTTATT
1 TATTTATTATTTTTATT
956738 TATTATATTATTTTTACTT
1 TATT-TATTATTTTTA-TT
956757 T-TTTATTATTATTTTATT
1 TATTTATTA-T-TTTTATT
956775 TATTTATT-TATTTTATT
1 TATTTATTAT-TTTTATT
*
956792 TATTTATT-TTTTCCTTTT
1 TATTTATTATTTT--TATT
* *
956810 TCTTTATTTTTTTATATT
1 TATTTATTATTTT-TATT
956828 TATTT
1 TATTT
956833 TACTTACTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
16 7 0.09
17 27 0.34
18 28 0.35
19 18 0.22
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTATTATTTTTATT
Found at i:956847 original size:62 final size:62
Alignment explanation
Indices: 956711--956847 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 62
956701 TTTATCTATA
*
956711 TATATATTTACTATTTATTTATTTATTTATTATATTATTTTTACTTTTTTATTATTATTTTATT
1 TATATATTTA-T-TTTATTTATTTATTTATTATATTATTTTTACTTTTTTATTATTATTTTACT
* * * *
956775 TATTTATTTATTTTATTTATTTATTT-TT-TCCTTTTTCTTTATTTTTTTA-TATTTATTTTACT
1 TATATATTTATTTTATTTATTTATTTATTAT-ATTATT-TTTACTTTTTTATTA-TTATTTTACT
956837 TACTAT-TTTAT
1 TA-TATATTTAT
956848 CTTTTCTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
60 1 0.02
61 8 0.13
62 42 0.67
63 3 0.05
64 9 0.14
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (62 bp):
TATATATTTATTTTATTTATTTATTTATTATATTATTTTTACTTTTTTATTATTATTTTACT
Found at i:959273 original size:18 final size:18
Alignment explanation
Indices: 959261--959298 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
959251 ATTTAATTAT
959261 TTTTATTTGTTTATAATA
1 TTTTATTTGTTTATAATA
959279 TTTTA-TT-TTTA-AATA
1 TTTTATTTGTTTATAATA
959294 TTTTA
1 TTTTA
959299 GATGTAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 2 0.10
18 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATTTGTTTATAATA
Found at i:959949 original size:11 final size:11
Alignment explanation
Indices: 959933--959961 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
959923 ACTCTTCTCA
959933 TTTTCTCATAT
1 TTTTCTCATAT
959944 TTTTCTCATAT
1 TTTTCTCATAT
959955 TTTTCTC
1 TTTTCTC
959962 TTCTTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTCTCATAT
Found at i:960843 original size:20 final size:20
Alignment explanation
Indices: 960818--960870 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
960808 TTAGTCTAGA
960818 GGTATCGATACCAGCAGATG
1 GGTATCGATACCAGCAGATG
960838 GGTATCGATACCAGCAGATG
1 GGTATCGATACCAGCAGATG
960858 GGTATCGATACCA
1 GGTATCGATACCA
960871 AAGTTTAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (20 bp):
GGTATCGATACCAGCAGATG
Found at i:962373 original size:60 final size:61
Alignment explanation
Indices: 962309--962438 Score: 149
Period size: 60 Copynumber: 2.1 Consensus size: 61
962299 TTAGGTGACT
*
962309 ATTTTGTAAATTTTAAT-AGTCGA-GAGACTTAACAAAGTAA-CATTCTATAGTCGAAAGACC
1 ATTTTGTAAATTTTAATCA-TCGATG-GACTTAACAAAGTAAGCACTCTATAGTCGAAAGACC
* * * * * *
962369 ATTTTGTAACTTTTAATCATTGATGGACTTAATAAAGTAAGTACTCTATAGTTGGAAGACC
1 ATTTTGTAAATTTTAATCATCGATGGACTTAACAAAGTAAGCACTCTATAGTCGAAAGACC
962430 ATTTATGTA
1 ATTT-TGTA
962439 TTTTATCTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 33 0.56
61 22 0.37
62 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (61 bp):
ATTTTGTAAATTTTAATCATCGATGGACTTAACAAAGTAAGCACTCTATAGTCGAAAGACC
Found at i:968618 original size:19 final size:19
Alignment explanation
Indices: 968583--968620 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
968573 TCCCCCTTGA
*
968583 AGGGGAACTGATTCCCCCT
1 AGGGGAACTGATACCCCCT
968602 AGGGGAA-TCGATACCCCCT
1 AGGGGAACT-GATACCCCCT
968621 TGGATTCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (19 bp):
AGGGGAACTGATACCCCCT
Found at i:970554 original size:186 final size:186
Alignment explanation
Indices: 970240--970612 Score: 746
Period size: 186 Copynumber: 2.0 Consensus size: 186
970230 CCTGAGCAGC
970240 CCGAGGAGCAAGCACAACAAACTAATCAAATGCCTCCATATTTTAAATCTTTTATGGAGACATTC
1 CCGAGGAGCAAGCACAACAAACTAATCAAATGCCTCCATATTTTAAATCTTTTATGGAGACATTC
970305 GATTTTCGATATGCTACCATAGATTCGCGCTTTTCTTCTATAGAGTCCCATTTATCCACAATGGG
66 GATTTTCGATATGCTACCATAGATTCGCGCTTTTCTTCTATAGAGTCCCATTTATCCACAATGGG
970370 AGCTCAACAATTGGAAATTCTCCGGGAGATGCGTGCAAACAATGAAGCAACCAACG
131 AGCTCAACAATTGGAAATTCTCCGGGAGATGCGTGCAAACAATGAAGCAACCAACG
970426 CCGAGGAGCAAGCACAACAAACTAATCAAATGCCTCCATATTTTAAATCTTTTATGGAGACATTC
1 CCGAGGAGCAAGCACAACAAACTAATCAAATGCCTCCATATTTTAAATCTTTTATGGAGACATTC
970491 GATTTTCGATATGCTACCATAGATTCGCGCTTTTCTTCTATAGAGTCCCATTTATCCACAATGGG
66 GATTTTCGATATGCTACCATAGATTCGCGCTTTTCTTCTATAGAGTCCCATTTATCCACAATGGG
970556 AGCTCAACAATTGGAAATTCTCCGGGAGATGCGTGCAAACAATGAAGCAACCAACG
131 AGCTCAACAATTGGAAATTCTCCGGGAGATGCGTGCAAACAATGAAGCAACCAACG
970612 C
1 C
970613 TCGTATTAAT
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 187 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (186 bp):
CCGAGGAGCAAGCACAACAAACTAATCAAATGCCTCCATATTTTAAATCTTTTATGGAGACATTC
GATTTTCGATATGCTACCATAGATTCGCGCTTTTCTTCTATAGAGTCCCATTTATCCACAATGGG
AGCTCAACAATTGGAAATTCTCCGGGAGATGCGTGCAAACAATGAAGCAACCAACG
Found at i:977057 original size:22 final size:22
Alignment explanation
Indices: 977031--977110 Score: 83
Period size: 23 Copynumber: 3.7 Consensus size: 22
977021 ATAGGGCAGA
*
977031 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
977053 GGGAACCGGTTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
* *
977076 GGGAACCGATTCCCCC-T-AGG
1 GGGAACCGATACCCCCTTGAAG
*
977096 GGGAATCGATACCCC
1 GGGAACCGATACCCC
977111 ATGGGGTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 15 0.30
21 1 0.02
22 13 0.26
23 21 0.42
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:977073 original size:23 final size:23
Alignment explanation
Indices: 977031--977092 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
977021 ATAGGGCAGA
* *
977031 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
977053 GGGAACCGGTTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
977076 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
977093 AGGGGGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:977116 original size:19 final size:20
Alignment explanation
Indices: 977075--977116 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
977065 CCCCTTTGAA
* *
977075 GGGGAACCGATTCCCCCTAG
1 GGGGAACCGATACCCCATAG
*
977095 GGGGAATCGATACCCCAT-G
1 GGGGAACCGATACCCCATAG
977114 GGG
1 GGG
977117 TTATGGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.21, C:0.29, G:0.36, T:0.14
Consensus pattern (20 bp):
GGGGAACCGATACCCCATAG
Found at i:980565 original size:31 final size:32
Alignment explanation
Indices: 980527--980586 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
980517 CCAAGGTAAG
*
980527 AATTGAAA-CTTCATCCTCTAAACTTTCAAAT
1 AATTGAAATCCTCATCCTCTAAACTTTCAAAT
*
980558 AATTGAAATCCTCGTCCTCTAAACTTTCA
1 AATTGAAATCCTCATCCTCTAAACTTTCA
980587 TCCAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (32 bp):
AATTGAAATCCTCATCCTCTAAACTTTCAAAT
Done.