Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 9 of 84
Found at i:1357512 original size:85 final size:85
Alignment explanation
Indices: 1357368--1357734 Score: 494
Period size: 85 Copynumber: 4.3 Consensus size: 85
1357358 TTGATCAAAA
* * * *
1357368 CTCCTCTAAGT-AGAGGCTCAACGACTTTGAAGATGAATAAAACTCCTTTAATCAAAGGCTTAAC
1 CTCCTCTAA-TCAGAGGCTCAACGACTTTGAAGATGAATAAAGCTCCTCTAATCAGAGGCTCAAC
1357432 GACTTTGAAAAATAAATAAAG
65 GACTTTGAAAAATAAATAAAG
*
1357453 CTCCTCTAATCAGAGGCTCAACGACTTTGAAGATGAATAAAGCTCCTCTAATCAGAGGCTCAATG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAGATGAATAAAGCTCCTCTAATCAGAGGCTCAACG
*
1357518 ACTTTAAAAAATAAATAAAG
66 ACTTTGAAAAATAAATAAAG
* * * * *
1357538 CTCCTATAATTAGAGGCTCAACGACTTTGAAAATTAAATAAAGCTCATCTAATCAGAGGCTCAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAGA-TGAATAAAGCTCCTCTAATCAGAGGCTCAAC
1357603 GACTTTAGAAAAATAAATAAAG
65 GACTTT-GAAAAATAAATAAAG
* * *
1357625 CTCCTCTAAGCAGAGGCTCAACGACTTTGAA-A--AGTAAGTGGCTCCTCTAATCAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAGATGAATAA--AGCTCCTCTAATCAGAGGCTCAA
* *
1357687 CGACTTTGAAAAGTAAAT--GG
64 CGACTTTGAAAAATAAATAAAG
*
1357707 CTCATCTAATCAGAGGCTCAACGACTTT
1 CTCCTCTAATCAGAGGCTCAACGACTTT
1357735 TGAAAAAGTA
Statistics
Matches: 254, Mismatches: 23, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
82 27 0.11
83 4 0.02
84 11 0.04
85 135 0.53
86 35 0.14
87 42 0.17
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (85 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAGATGAATAAAGCTCCTCTAATCAGAGGCTCAACG
ACTTTGAAAAATAAATAAAG
Found at i:1357595 original size:128 final size:129
Alignment explanation
Indices: 1357368--1357746 Score: 484
Period size: 128 Copynumber: 3.0 Consensus size: 129
1357358 TTGATCAAAA
* * * * * * *
1357368 CTCCTCTAAGT-AGAGGCTCAACGACTTTGAAGATGAATAAAACTCCTTTAATCAAAGGCTTAAC
1 CTCCTCTAA-TCAGAGGCTCAACGACTTTAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAAC
* * *
1357432 GACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-G-AAGATGAATAAAG
65 GACTTTGAAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAAAG
* *
1357495 CTCCTCTAATCAGAGGCTCAATGACTTTAAAAAATAAATAAAGCTCCTATAATTAGAGGCTCAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTT-AAAAATAAATAAAGCTCCTATAATCAGAGGCTCAAC
*
1357560 GACTTTGAAAATTAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAAAG
65 GACTTTGAAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAAAG
* * * * *
1357625 CTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGTAAGT--GGCTCCTCTAATCAGAGGCTCAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTT-AAAAATAAATAAAGCTCCTATAATCAGAGGCTCAAC
* * *
1357688 GACTTTGAAAAGTAAAT--GGCTCATCTAATCAGAGGCTCAACGACTTTTGAAAAAGTAAA
65 GACTTTGAAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTAGAAAAA-TAAA
1357747 ATGCTCCTTG
Statistics
Matches: 223, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
126 36 0.16
127 29 0.13
128 112 0.50
129 1 0.00
130 45 0.20
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (129 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTAAAAATAAATAAAGCTCCTATAATCAGAGGCTCAACG
ACTTTGAAAAATAAATAAAGCTCATCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATAAAG
Found at i:1358749 original size:8 final size:8
Alignment explanation
Indices: 1358736--1358819 Score: 86
Period size: 8 Copynumber: 10.2 Consensus size: 8
1358726 TCCTTTTTCA
1358736 TTCATTTT
1 TTCATTTT
1358744 TTCA-TTT
1 TTCATTTT
1358751 TTCATTTT
1 TTCATTTT
1358759 TT--TCTTT
1 TTCAT-TTT
1358766 TTCA-TTT
1 TTCATTTT
1358773 TTCATTTT
1 TTCATTTT
1358781 TTCATCTTT
1 TTCAT-TTT
1358790 TTCATTTTTTT
1 TTCA---TTTT
1358801 TTCATTTT
1 TTCATTTT
1358809 TTCCATTTT
1 TT-CATTTT
1358818 TT
1 TT
1358820 TTCAAGCATA
Statistics
Matches: 66, Mismatches: 0, Indels: 19
0.78 0.00 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.29
8 23 0.35
9 15 0.23
11 7 0.11
12 1 0.02
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (8 bp):
TTCATTTT
Found at i:1358753 original size:7 final size:7
Alignment explanation
Indices: 1358736--1358809 Score: 66
Period size: 7 Copynumber: 10.3 Consensus size: 7
1358726 TCCTTTTTCA
1358736 TTCATTTT
1 TTCA-TTT
1358744 TTCATTT
1 TTCATTT
1358751 TTCATTTTT
1 TTCA--TTT
1358760 TTC-TTT
1 TTCATTT
1358766 TTCATTT
1 TTCATTT
1358773 TTCATTTT
1 TTCA-TTT
1358781 TTCATCTTT
1 TTCA--TTT
1358790 TTCA-TT
1 TTCATTT
1358796 TT--TTT
1 TTCATTT
1358801 TTCATTT
1 TTCATTT
1358808 TT
1 TT
1358810 TCCATTTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
5 4 0.07
6 10 0.18
7 19 0.33
8 11 0.19
9 13 0.23
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (7 bp):
TTCATTT
Found at i:1358756 original size:15 final size:15
Alignment explanation
Indices: 1358736--1358798 Score: 85
Period size: 15 Copynumber: 4.1 Consensus size: 15
1358726 TCCTTTTTCA
1358736 TTCATTTTTTCATTT
1 TTCATTTTTTCATTT
1358751 TTCATTTTTTTC-TTT
1 TTCA-TTTTTTCATTT
1358766 TTCA-TTTTTCATTTT
1 TTCATTTTTTCA-TTT
1358781 TTCATCTTTTTCATTT
1 TTCAT-TTTTTCATTT
1358797 TT
1 TT
1358799 TTTTCATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.14
15 18 0.42
16 12 0.28
17 7 0.16
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCATTTTTTCATTT
Found at i:1358766 original size:22 final size:23
Alignment explanation
Indices: 1358741--1358798 Score: 100
Period size: 22 Copynumber: 2.5 Consensus size: 23
1358731 TTTCATTCAT
1358741 TTTTTCATTTTTCATTTTTT-TC
1 TTTTTCATTTTTCATTTTTTATC
1358763 TTTTTCATTTTTCATTTTTTCATC
1 TTTTTCATTTTTCATTTTTT-ATC
1358787 TTTTTCATTTTT
1 TTTTTCATTTTT
1358799 TTTTCATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 20 0.59
24 14 0.41
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCATTTTTCATTTTTTATC
Found at i:1358823 original size:19 final size:20
Alignment explanation
Indices: 1358723--1358821 Score: 84
Period size: 19 Copynumber: 5.0 Consensus size: 20
1358713 TCGCCTTAAG
*
1358723 TCATCCTTTTTCATTCATTTTT
1 TCAT-CTTTTTCATT-TTTTTT
1358745 TCA--TTTTTCATTTTTTTCT
1 TCATCTTTTTCATTTTTTT-T
**
1358764 TTTTCATTTTTCA---TTTTT
1 TCATC-TTTTTCATTTTTTTT
1358782 TCATCTTTTTCATTTTTTTT
1 TCATCTTTTTCATTTTTTTT
1358802 TCAT-TTTTTCCATTTTTTTT
1 TCATCTTTTT-CATTTTTTTT
1358822 CAAGCATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
17 7 0.11
18 8 0.12
19 20 0.31
20 19 0.30
22 10 0.16
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (20 bp):
TCATCTTTTTCATTTTTTTT
Found at i:1358823 original size:30 final size:28
Alignment explanation
Indices: 1358729--1358820 Score: 114
Period size: 28 Copynumber: 3.2 Consensus size: 28
1358719 TAAGTCATCC
*
1358729 TTTTTCATTCATTTTTTCA-TTTTTCATT
1 TTTTTCATT-TTTTTTTCATTTTTTCATT
* *
1358757 TTTTTCTTTTTCATTTTTCATTTTTTCATC
1 TTTTTCATTTT--TTTTTCATTTTTTCATT
1358787 TTTTTCATTTTTTTTTCATTTTTTCCATT
1 TTTTTCATTTTTTTTTCATTTTTT-CATT
1358816 TTTTT
1 TTTTT
1358821 TCAAGCATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
27 1 0.02
28 21 0.38
29 15 0.27
30 18 0.33
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTCATTTTTTTTTCATTTTTTCATT
Found at i:1369334 original size:18 final size:17
Alignment explanation
Indices: 1369311--1369345 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1369301 TGATACTTTC
1369311 AACTTTTCTTCAAAAAAA
1 AACTTTT-TTCAAAAAAA
*
1369329 AACTTTTTTTAAAAAAA
1 AACTTTTTTCAAAAAAA
1369346 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (17 bp):
AACTTTTTTCAAAAAAA
Found at i:1369353 original size:16 final size:15
Alignment explanation
Indices: 1369324--1369364 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
1369314 TTTTCTTCAA
*
1369324 AAAAAAACTTTTTTT
1 AAAAAAATTTTTTTT
1369339 AAAAAAATTTATTTTT
1 AAAAAAATTT-TTTTT
1369355 AAGAAAAATT
1 AA-AAAAATT
1369365 GATACTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 7 0.30
17 7 0.30
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AAAAAAATTTTTTTT
Found at i:1369567 original size:120 final size:121
Alignment explanation
Indices: 1369234--1369567 Score: 453
Period size: 122 Copynumber: 2.8 Consensus size: 121
1369224 TTTTATGCAG
* * *
1369234 GAAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTTTTGAAACTTTAATTTCGAAGAAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTGGAAACTTTAATTTC-AAGAAA
**
1369299 ATTGATACTTTCAACTTTTCTTC-AAAAAAAAACTTTTTTTAAAAAAATTTATTTTTAA
64 ATTGATACTTTCAACTTTTCCCCAAAAAAAAAACTTTTTTT-AAAAAATTTATTTTTAA
* * *
1369357 GAAAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTTGAAAATTTTAATTTCGAGAAAA
1 GAAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGGAAACTTTAATTTCAAG-AAA
* *
1369421 ATTGATACTTTCAACTTTT-CCTAAAAAAAAAACTTTTTTT-GAAAATTTATTTTTAA
64 ATTGATACTTTCAACTTTTCCCCAAAAAAAAAACTTTTTTTAAAAAATTTATTTTTAA
* * *
1369477 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTGGAAAGTTTATTTTCAAGTAAAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCAAG-AAAA
*
1369541 TTGATACTTTCAAATTTTCCCCAAAAA
65 TTGATACTTTCAACTTTTCCCCAAAAA
1369568 TATTTTTTTA
Statistics
Matches: 188, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
119 41 0.22
120 48 0.26
121 9 0.05
122 64 0.34
123 26 0.14
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (121 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCAAGAAAAT
TGATACTTTCAACTTTTCCCCAAAAAAAAAACTTTTTTTAAAAAATTTATTTTTAA
Found at i:1369620 original size:15 final size:15
Alignment explanation
Indices: 1369602--1369747 Score: 51
Period size: 14 Copynumber: 9.9 Consensus size: 15
1369592 AAGAAAATAA
1369602 AAAATATAAAAAAAT
1 AAAATATAAAAAAAT
* **
1369617 AAAA-ATGAAACTA-
1 AAAATATAAAAAAAT
1369630 AAAATA-AAAGAAAAT
1 AAAATATAAA-AAAAT
1369645 -AAATA-AAAACAAA-
1 AAAATATAAAA-AAAT
*
1369658 AAAATATTAAACAAAT
1 AAAATA-TAAAAAAAT
** * **
1369674 CTAATCT-AATCAAT
1 AAAATATAAAAAAAT
* *
1369688 -AAATA-ATAATAAT
1 AAAATATAAAAAAAT
*
1369701 AATAATAATAATAAAAT
1 AA-AAT-ATAAAAAAAT
1369718 AAATATATAAAAAAAT
1 AAA-ATATAAAAAAAT
1369734 AAAATGA-AAAAAAA
1 AAAAT-ATAAAAAAA
1369748 ACTTGGAAAC
Statistics
Matches: 95, Mismatches: 21, Indels: 30
0.65 0.14 0.21
Matches are distributed among these distances:
13 14 0.15
14 31 0.33
15 20 0.21
16 21 0.22
17 9 0.09
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATATAAAAAAAT
Found at i:1369633 original size:20 final size:18
Alignment explanation
Indices: 1369607--1369663 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 18
1369597 AATAAAAAAT
1369607 ATAAAAA-AATAAAAATGAA
1 ATAAAAACAA-AAAAAT-AA
*
1369626 ACTAAAAATAAAAGAAAATAA
1 A-TAAAAA-CAAA-AAAATAA
1369647 ATAAAAACAAAAAAATA
1 ATAAAAACAAAAAAATA
1369664 TTAAACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 6 0.18
19 4 0.12
20 12 0.36
21 4 0.12
22 7 0.21
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (18 bp):
ATAAAAACAAAAAAATAA
Found at i:1369663 original size:28 final size:27
Alignment explanation
Indices: 1369591--1369660 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
1369581 AACTTTATTT
*
1369591 AAAGAAAATAAAAAATATAAAAAAATAA
1 AAAG-AAACAAAAAATATAAAAAAATAA
*
1369619 AAATGAAACTAAAAATA-AAAGAAAATAA
1 AAA-GAAACAAAAAATATAAA-AAAATAA
1369647 ATAA-AAACAAAAAA
1 A-AAGAAACAAAAAA
1369661 ATATTAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.33
28 21 0.58
29 3 0.08
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (27 bp):
AAAGAAACAAAAAATATAAAAAAATAA
Found at i:1369697 original size:3 final size:3
Alignment explanation
Indices: 1369689--1369719 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1369679 CTAATCAATA
1369689 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1369720 ATATATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1369722 original size:12 final size:12
Alignment explanation
Indices: 1369695--1369735 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1369685 AATAAATAAT
1369695 AATAATAATAAT-
1 AATAATAA-AATA
1369707 AATAATAAAATA
1 AATAATAAAATA
1369719 AATATATAAAA-A
1 AATA-ATAAAATA
1369731 AATAA
1 AATAA
1369736 AATGAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 17 0.63
13 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:1370609 original size:39 final size:42
Alignment explanation
Indices: 1370555--1370660 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 42
1370545 TAAAAAATGC
*
1370555 TAAT-AGATAATTAAAAA-ATAAT-TAGATAAATAATAATAT-
1 TAATCAGATAACTAAAAATA-AATATAGATAAATAATAATATA
*
1370594 TAA-CAGATAACTAAAAATAAATAATAGATAAATTATAATATA
1 TAATCAGATAACTAAAAATAAAT-ATAGATAAATAATAATATA
* * *
1370636 TAATCAGATAAATATATATAAATAT
1 TAATCAGATAACTAAAAATAAATAT
1370661 TAACAGAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 18 0.32
40 1 0.02
41 16 0.29
42 5 0.09
43 16 0.29
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (42 bp):
TAATCAGATAACTAAAAATAAATATAGATAAATAATAATATA
Found at i:1370658 original size:43 final size:42
Alignment explanation
Indices: 1370570--1370659 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
1370560 GATAATTAAA
*
1370570 AAATAATTAGATAAATAATAATATTAACAGATAACTAAAAAT
1 AAATAATTAGATAAATAATAATATTAACAGATAAATAAAAAT
* * *
1370612 AAATAA-TAGATAAATTATAATATATAATCAGATAAATATATAT
1 AAATAATTAGATAAATAATAATAT-TAA-CAGATAAATAAAAAT
1370655 AAATA
1 AAATA
1370660 TTAACAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 16 0.38
42 9 0.21
43 17 0.40
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (42 bp):
AAATAATTAGATAAATAATAATATTAACAGATAAATAAAAAT
Found at i:1370693 original size:5 final size:5
Alignment explanation
Indices: 1370676--1370747 Score: 58
Period size: 5 Copynumber: 14.0 Consensus size: 5
1370666 GAAAAGAAAG
* * * *
1370676 AAAAT -AAAG AAAAT AAAAT ATAAAT AAAAT AAAAAT ATAA- AACAC AAAAT
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
1370726 AAAAAT AAAAAT AAAAT AAAAT
1 -AAAAT -AAAAT AAAAT AAAAT
1370748 GAGCTTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
4 5 0.09
5 29 0.53
6 21 0.38
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1370702 original size:11 final size:11
Alignment explanation
Indices: 1370685--1370746 Score: 70
Period size: 11 Copynumber: 5.3 Consensus size: 11
1370675 GAAAATAAAG
1370685 AAAATAAAATA
1 AAAATAAAATA
*
1370696 TAAATAAAATAA
1 AAAATAAAAT-A
*
1370708 AAATATAAAACA
1 AAA-ATAAAATA
1370720 CAAAATAAAAATA
1 -AAAAT-AAAATA
1370733 AAAATAAAATA
1 AAAATAAAATA
1370744 AAA
1 AAA
1370747 TGAGCTTACC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 18 0.42
12 11 0.26
13 14 0.33
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:1370710 original size:6 final size:6
Alignment explanation
Indices: 1370685--1370746 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
1370675 GAAAATAAAG
* *
1370685 AAAAT- AAAATA TAAAT- AAAATA AAAATA TAAAACA CAAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA -AAAATA AAAATA
1370733 AAAAT- AAAATA AAA
1 AAAATA AAAATA AAA
1370747 TGAGCTTACC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
5 14 0.29
6 24 0.50
7 10 0.21
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:1372753 original size:140 final size:139
Alignment explanation
Indices: 1372587--1372845 Score: 319
Period size: 140 Copynumber: 1.8 Consensus size: 139
1372577 AAATAGTTTC
* * *
1372587 AAATAGACATAAACGATAACTTTTTC--ACCTAT-ATCAATCGTAGAAACCAAGTTCAATCAA-T
1 AAATAGACATAAACAATAACTTTTTCATACATATCATCCAT-GT--AAACCAAGTTCAA--AACT
* * *
1372648 CGGATAAGTTTAATATCAAGTATTGAAGCTATCCAAACTATTTAAATAAAACAATAACAACAAAT
61 CGGATAAGTTTAATAACAAGTATTGAAACTATCCAAACTATTAAAATAAAACAATAACAACAAAT
1372713 TTGTATTTTTACCT
126 TTGTATTTTTACCT
* * * **
1372727 AAATAGACATAAATAATAACTTTTTCATACATATCATCCATGTTAACTAAGTTCAAAACTTTTGA
1 AAATAGACATAAACAATAACTTTTTCATACATATCATCCATGTAAACCAAGTTCAAAAC-TCGGA
* *
1372792 TAAGTTTAATAACATGTATTGAAACTATCCAAACTATTAAAATAGAACAATAAC
65 TAAGTTTAATAACAAGTATTGAAACTATCCAAACTATTAAAATAAAACAATAAC
1372846 TGTTAATTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
138 2 0.02
140 87 0.86
142 7 0.07
143 5 0.05
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (139 bp):
AAATAGACATAAACAATAACTTTTTCATACATATCATCCATGTAAACCAAGTTCAAAACTCGGAT
AAGTTTAATAACAAGTATTGAAACTATCCAAACTATTAAAATAAAACAATAACAACAAATTTGTA
TTTTTACCT
Found at i:1375698 original size:52 final size:52
Alignment explanation
Indices: 1375612--1375768 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
1375602 TATAATCATA
* * * *
1375612 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCATGTAAGT
1 CAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCATGCAAGT
* **
1375664 CAAACTTGCCTATTAAGAATCCTTTTCCTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCATGCAAGT
* * * **
1375716 TAAACTTACCTATTAAGAATTCTCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCT-TTTCCTCTTAGAATTCTTCTCATGCAAGT
1375768 C
1 C
1375769 TTCTTGTCTA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 89 0.97
53 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCATGCAAGT
Found at i:1375809 original size:11 final size:11
Alignment explanation
Indices: 1375793--1375823 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1375783 GCAATATCTG
1375793 ACAAATCTCAA
1 ACAAATCTCAA
*
1375804 ACAAATCCCAA
1 ACAAATCTCAA
1375815 ACAAATCTC
1 ACAAATCTC
1375824 TTATGTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:1376159 original size:25 final size:25
Alignment explanation
Indices: 1376071--1376190 Score: 107
Period size: 25 Copynumber: 4.8 Consensus size: 25
1376061 TGTACTTTTT
* * * *
1376071 ACATCTTAAACCTTTAGCTCTTCCC
1 ACATCTTGAACCTTCAACTCTTTCC
** * *
1376096 ACATCTCAAACTTTCAGCTC-TTCC
1 ACATCTTGAACCTTCAACTCTTTCC
* *
1376120 ACATCTCGAACCTTCGACTCTTTCC
1 ACATCTTGAACCTTCAACTCTTTCC
* *
1376145 ACATCTTGAATCTTCAACTCTTTTC
1 ACATCTTGAACCTTCAACTCTTTCC
* *
1376170 ACATTTTGAACATTCAACTCT
1 ACATCTTGAACCTTCAACTCT
1376191 GATATCACTT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
24 19 0.24
25 60 0.76
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.37
Consensus pattern (25 bp):
ACATCTTGAACCTTCAACTCTTTCC
Found at i:1376291 original size:12 final size:12
Alignment explanation
Indices: 1376274--1376307 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1376264 AGCGGAAGTG
1376274 AAATCAAACAAT
1 AAATCAAACAAT
1376286 AAATCAAACAAT
1 AAATCAAACAAT
1376298 AAATCAAACA
1 AAATCAAACA
1376308 CACAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATCAAACAAT
Found at i:1376820 original size:52 final size:53
Alignment explanation
Indices: 1376734--1376889 Score: 203
Period size: 52 Copynumber: 3.0 Consensus size: 53
1376724 TATAATCATA
* * *
1376734 CAAACTTGCCCATTAAGAATCCCTCTCTTCTTAGAATTCTTTTTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCTTCTTAGAATTCTTTTTCTTGCAAGT
* * *
1376786 TAAACTTGTCTATTAAGAATCCCTTTCTTTTTAGAATTC-TTTTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCTTCTTAGAATTCTTTTTCTTGCAAGT
* *
1376838 CAAACTTACCTATTAAGAATCCTCTTTC-TCTTAGAATTCTTCTT-TTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTTCTTAGAATTCTTTTTCTTGCAAGT
1376890 TTTCTTGTCT
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 5 0.06
52 77 0.86
53 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.44
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTTCTTAGAATTCTTTTTCTTGCAAGT
Found at i:1376942 original size:11 final size:11
Alignment explanation
Indices: 1376915--1376953 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1376905 GCAATATCTG
*
1376915 ACAAATCTCAA
1 ACAAATTTCAA
* *
1376926 ATAAATTTCTA
1 ACAAATTTCAA
1376937 ACAAATTTCAA
1 ACAAATTTCAA
1376948 ACAAAT
1 ACAAAT
1376954 CTCTTATGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (11 bp):
ACAAATTTCAA
Found at i:1377923 original size:52 final size:52
Alignment explanation
Indices: 1377855--1378001 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
1377845 TATAATCATA
* * *
1377855 CAAATTTACCCATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGCAAGT
* * * *
1377907 CAAACTTACCTATTAAGAATCCCTTTCCTTTTAAAATTTTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGCAAGT
* * *
1377959 CAAACTTACCTATTAAGAAT-CTTCTTTCTCTTAGAATTCTTCT
1 CAAACTTACCTATTAAGAATCCCTC-TCCTCTTAGAATTTTTCT
1378002 TTTACAAGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.41
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTTTTCTCCTGCAAGT
Found at i:1378052 original size:11 final size:11
Alignment explanation
Indices: 1378036--1378077 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
1378026 GCAATATTTG
1378036 ACAAATCTCAA
1 ACAAATCTCAA
* *
1378047 ACAAATATCTA
1 ACAAATCTCAA
*
1378058 ACAAATCCCAA
1 ACAAATCTCAA
1378069 ACAAATCTC
1 ACAAATCTC
1378078 TTATGGGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:1378353 original size:25 final size:25
Alignment explanation
Indices: 1378317--1378385 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
1378307 AAATCATGCA
* *
1378317 CTTTTCACATCTTAAACCTTTAGCT
1 CTTTTCATATCTCAAACCTTTAGCT
* *
1378342 CTTTTCATATCTCGAACTTTTAGCT
1 CTTTTCATATCTCAAACCTTTAGCT
* *
1378367 CTTCT-ATATCTCGAACCTT
1 CTTTTCATATCTCAAACCTT
1378386 CGATTCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
24 13 0.34
25 25 0.66
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.45
Consensus pattern (25 bp):
CTTTTCATATCTCAAACCTTTAGCT
Found at i:1378375 original size:24 final size:25
Alignment explanation
Indices: 1378335--1378382 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
1378325 ATCTTAAACC
*
1378335 TTTAGCTCTTTTCATATCTCGAACT
1 TTTAGCTCTTCTCATATCTCGAACT
1378360 TTTAGCTCTTCT-ATATCTCGAAC
1 TTTAGCTCTTCTCATATCTCGAAC
1378383 CTTCGATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.21, C:0.25, G:0.08, T:0.46
Consensus pattern (25 bp):
TTTAGCTCTTCTCATATCTCGAACT
Found at i:1379193 original size:22 final size:23
Alignment explanation
Indices: 1379150--1379197 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
1379140 TCAAGCAATA
*
1379150 TCTAATAAATCTCAAAAAAAATC
1 TCTAACAAATCTCAAAAAAAATC
*
1379173 TCTAACAAATC-CAAAACAAATC
1 TCTAACAAATCTCAAAAAAAATC
1379195 TCT
1 TCT
1379198 TATGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (23 bp):
TCTAACAAATCTCAAAAAAAATC
Found at i:1381085 original size:134 final size:135
Alignment explanation
Indices: 1380893--1381233 Score: 386
Period size: 134 Copynumber: 2.5 Consensus size: 135
1380883 ATTTTAGTGG
* * * * * * *
1380893 CATTTATATATTTGAGACGCCGCTAAATTAAT-GATGTTTTTACGAGAAAAATGTCGTTGATTTG
1 CATTTGTATATTTGAGACGCCACTAATTTAGTGGAAGTTTTTATGAGAAAAATGTCGTTGCTTTG
* * * * * *
1380957 GTGACATTTGTAAATAAAAACGTCGCTACTTTAGAGGCGTTTGTATTTGAAAATA-CTTCTATAT
66 GTGACATTTGTAAATAAAAACATCACTACTTTAGAGGCATTTGTATATAAAAACACCTT-TATAT
*
1381021 TAGCAG
130 TAGCAA
* * * * *
1381027 CATTTTTTTCTTTGAGATGCTACTAATTTAGT-GAAGTTTTTATGAGAAAAATGTCGTTGCTTTG
1 CATTTGTATATTTGAGACGCCACTAATTTAGTGGAAGTTTTTATGAGAAAAATGTCGTTGCTTTG
* * * *
1381091 AT-AGCATTTGTAACTGAAAATATCACTACTTTAGAGGCATTTGTATATAAAAACACCTTTATAT
66 GTGA-CATTTGTAAATAAAAACATCACTACTTTAGAGGCATTTGTATATAAAAACACCTTTATAT
1381155 TAGCAA
130 TAGCAA
* * *
1381161 CATTTGTATATTTGAGACGCCGCTAATTTAGTGGCA-TTTTTATGAGAAAAATATCGTTGCTTTG
1 CATTTGTATATTTGAGACGCCACTAATTTAGTGGAAGTTTTTATGAGAAAAATGTCGTTGCTTTG
*
1381225 GTGGCATTT
66 GTGACATTT
1381234 ATATAAAAAT
Statistics
Matches: 171, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
133 1 0.01
134 165 0.96
135 5 0.03
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (135 bp):
CATTTGTATATTTGAGACGCCACTAATTTAGTGGAAGTTTTTATGAGAAAAATGTCGTTGCTTTG
GTGACATTTGTAAATAAAAACATCACTACTTTAGAGGCATTTGTATATAAAAACACCTTTATATT
AGCAA
Found at i:1387415 original size:11 final size:11
Alignment explanation
Indices: 1387396--1387426 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1387386 ATCTCTATAC
1387396 TCTTGACTTAA
1 TCTTGACTTAA
*
1387407 TCTTAACTTAA
1 TCTTGACTTAA
1387418 TCTTGACTT
1 TCTTGACTT
1387427 TTGCATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (11 bp):
TCTTGACTTAA
Found at i:1388729 original size:111 final size:109
Alignment explanation
Indices: 1388535--1388825 Score: 352
Period size: 111 Copynumber: 2.6 Consensus size: 109
1388525 ATAACAACCG
* ** *
1388535 CCTTCAATAA-TTTTCGTTTAAAAATTTTGGGATTATTAAAGGCGTCTTCTGTTGGAAAATACCT
1 CCTTCAATAATTTTTC-TTTAAAAATTTTAGGATTATTAAAGGCGTCTTCTACT-GAAAATGCCT
* * *
1388599 TCAATATACCATTATAGTTATAAAAGGCATTTATTCTATAAAAACA
64 TCAATATACCACTACAGTTATAAAAGGCATTTATTCCATAAAAACA
* * *
1388645 CCTTCAATAATTTTTCTCTAAAAAATTTTTGGATTATTAAAGGCGTCTTTTACTAGAAAATGCCT
1 CCTTCAATAATTTTTCT-TTAAAAATTTTAGGATTATTAAAGGCGTCTTCTACT-GAAAATGCCT
* * * ***
1388710 TCAATATATCACTACAGTTATAAAATGTATTTATTCCATAAAATTG
64 TCAATATACCACTACAGTTATAAAAGGCATTTATTCCATAAAAACA
* *
1388756 CCTTCAATAATTTTTCTTTAAAAATTTTAGGATTATTAAAAGCATCTTCTACTGACAAA-GCCCT
1 CCTTCAATAATTTTTCTTTAAAAATTTTAGGATTATTAAAGGCGTCTTCTACTGA-AAATG-CCT
1388820 TCAATA
64 TCAATA
1388826 ATTCCATTTA
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
109 3 0.02
110 54 0.35
111 99 0.63
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (109 bp):
CCTTCAATAATTTTTCTTTAAAAATTTTAGGATTATTAAAGGCGTCTTCTACTGAAAATGCCTTC
AATATACCACTACAGTTATAAAAGGCATTTATTCCATAAAAACA
Found at i:1391363 original size:16 final size:15
Alignment explanation
Indices: 1391327--1391369 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
1391317 AGAATTGATA
*
1391327 TTTTAAACTAAAAAT
1 TTTTAAACAAAAAAT
1391342 TTTTAAACAAAAAAT
1 TTTTAAACAAAAAAT
1391357 TTGTTAATACAAA
1 TT-TTAA-ACAAA
1391370 CATGTAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 16 0.64
16 4 0.16
17 5 0.20
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (15 bp):
TTTTAAACAAAAAAT
Found at i:1399255 original size:29 final size:29
Alignment explanation
Indices: 1399203--1399258 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1399193 TTCGAATTTC
1399203 TTATTTCATGCAATAAAAATTTATAACTT
1 TTATTTCATGCAATAAAAATTTATAACTT
*
1399232 TTATTTCATGTAAT-AAAATATTATAAC
1 TTATTTCATGCAATAAAAAT-TTATAAC
1399259 ATGTTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (29 bp):
TTATTTCATGCAATAAAAATTTATAACTT
Found at i:1401691 original size:17 final size:17
Alignment explanation
Indices: 1401649--1401706 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
1401639 TTTAGTGAAT
* *
1401649 TATTATATTAATAAAGA
1 TATTATATAAATAAAAA
1401666 TAATT-TATAAATAAAAA
1 T-ATTATATAAATAAAAA
*
1401683 TATTATATAATATTAAAA
1 TATTATATAA-ATAAAAA
*
1401701 TTTTAT
1 TATTAT
1401707 TATTTATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.09
17 17 0.50
18 14 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATTATATAAATAAAAA
Found at i:1402964 original size:24 final size:22
Alignment explanation
Indices: 1402906--1402964 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
1402896 AAATTTTTTC
* *
1402906 TTTTAAAATATTTAATAAATATT
1 TTTT-AAATATTTTATAAATATA
*
1402929 TTTTAAA-ATTATA-AAATATAA
1 TTTTAAATATTTTATAAATAT-A
1402950 TTTTAAATATTTTAT
1 TTTTAAATATTTTAT
1402965 TTTTTTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 8 0.28
23 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAAATATTTTATAAATATA
Found at i:1403226 original size:16 final size:15
Alignment explanation
Indices: 1403205--1403236 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1403195 AGATGATTGA
1403205 TTGTTTTTTTTGTTTT
1 TTGTTTTTTTT-TTTT
1403221 TTGTTTTTTTTTTTT
1 TTGTTTTTTTTTTTT
1403236 T
1 T
1403237 GCTATTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (15 bp):
TTGTTTTTTTTTTTT
Found at i:1403285 original size:20 final size:20
Alignment explanation
Indices: 1403260--1403300 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1403250 CCTTTTTATA
1403260 AAAAATA-TTTAATAATTTTT
1 AAAAATATTTTAA-AATTTTT
1403280 AAAAATATTTTAAAATTTTT
1 AAAAATATTTTAAAATTTTT
1403300 A
1 A
1403301 GTATGGAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATATTTTAAAATTTTT
Found at i:1403660 original size:14 final size:14
Alignment explanation
Indices: 1403641--1403673 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1403631 ACGTAACACT
*
1403641 TTATTTATTTTTTA
1 TTATTTATTATTTA
1403655 TTATTTATTATTTA
1 TTATTTATTATTTA
1403669 -TATTT
1 TTATTT
1403674 TGCAACTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTATTATTTA
Found at i:1404594 original size:2 final size:2
Alignment explanation
Indices: 1404583--1404618 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1404573 CAAGCTACTC
1404583 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1404619 TATCTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1407134 original size:16 final size:17
Alignment explanation
Indices: 1407113--1407148 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1407103 CAAAAATATA
1407113 AAAATTTTAT-TTAAAT
1 AAAATTTTATATTAAAT
*
1407129 AAAATTTTATATTTAAT
1 AAAATTTTATATTAAAT
1407146 AAA
1 AAA
1407149 CTAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTTATATTAAAT
Found at i:1407143 original size:18 final size:16
Alignment explanation
Indices: 1407110--1407148 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
1407100 TTTCAAAAAT
1407110 ATAAAAATTTTATTTAA
1 ATAAAAATTTTATTT-A
*
1407127 ATAAAATTTTATATTTA
1 ATAAAAATTT-TATTTA
1407144 ATAAA
1 ATAAA
1407149 CTAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAAAAATTTTATTTA
Found at i:1407850 original size:40 final size:35
Alignment explanation
Indices: 1407778--1407846 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
1407768 TAATTTAAAA
* *
1407778 TTTATAAATGAAATTAATAGTGTAACAAAGTCAAT
1 TTTATAAATGAAATCAATAGGGTAACAAAGTCAAT
1407813 TTTATAAATGAAATCAATAGGGTAACAAAGTCAA
1 TTTATAAATGAAATCAATAGGGTAACAAAGTCAA
1407847 GTCAGTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.30
Consensus pattern (35 bp):
TTTATAAATGAAATCAATAGGGTAACAAAGTCAAT
Found at i:1408456 original size:23 final size:22
Alignment explanation
Indices: 1408394--1408456 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 22
1408384 ATAATAAAAA
* *
1408394 ATATTATTATAATAAAAATAATT
1 ATATT-TTAAAATAAAAAGAATT
* *
1408417 A-AATTTGAAATATAAAAGAATTT
1 ATATTTTAAAATA-AAAAGAA-TT
1408440 ATATTTTAAAATAAAAA
1 ATATTTTAAAATAAAAA
1408457 ATATATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 6 0.19
22 8 0.26
23 8 0.26
24 9 0.29
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (22 bp):
ATATTTTAAAATAAAAAGAATT
Found at i:1411112 original size:12 final size:13
Alignment explanation
Indices: 1411095--1411123 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1411085 TTAAAAATAT
1411095 AAATATTTT-TTA
1 AAATATTTTCTTA
1411107 AAATATTTTCTTA
1 AAATATTTTCTTA
1411120 AAAT
1 AAAT
1411124 CGATTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATATTTTCTTA
Found at i:1411681 original size:13 final size:13
Alignment explanation
Indices: 1411660--1411690 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1411650 TGTTACACTA
1411660 TGAGACCAAGTTT
1 TGAGACCAAGTTT
*
1411673 TGAGTCCAAGTTT
1 TGAGACCAAGTTT
1411686 TGAGA
1 TGAGA
1411691 GAGCAAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (13 bp):
TGAGACCAAGTTT
Found at i:1412640 original size:38 final size:38
Alignment explanation
Indices: 1412598--1412675 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
1412588 GTACACCCCA
* * * *
1412598 TTCTTTTGTGTATCTTAAGAGATCAAGCTTCTTTTCCT
1 TTCTTTTGTGTACCTCAACAGATCAAACTTCTTTTCCT
1412636 TTCTTTTGTGTACCTCAACAGATCAAACTTCTTTTCCT
1 TTCTTTTGTGTACCTCAACAGATCAAACTTCTTTTCCT
1412674 TT
1 TT
1412676 TTACCTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.49
Consensus pattern (38 bp):
TTCTTTTGTGTACCTCAACAGATCAAACTTCTTTTCCT
Found at i:1418008 original size:2 final size:2
Alignment explanation
Indices: 1418003--1418032 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1417993 AAAAAAAAAA
*
1418003 AT AT AT AT TT 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
1418033 GGTGAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1425549 original size:39 final size:39
Alignment explanation
Indices: 1425503--1425580 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
1425493 AATAAGGAGA
1425503 TTGTTAAAATAGTAGGTGTAATGATAAGTAGTAAAAAAT
1 TTGTTAAAATAGTAGGTGTAATGATAAGTAGTAAAAAAT
*
1425542 TTGTTAAAATAGTAGGTGTAATGATAAGTAGTCAAAAAT
1 TTGTTAAAATAGTAGGTGTAATGATAAGTAGTAAAAAAT
1425581 GAACCTGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.33
Consensus pattern (39 bp):
TTGTTAAAATAGTAGGTGTAATGATAAGTAGTAAAAAAT
Found at i:1427186 original size:30 final size:30
Alignment explanation
Indices: 1427150--1427253 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
1427140 TTTATAACAA
*
1427150 TCAAATAAATTATTTACTTTTAATTTATAT
1 TCAAATAAATTATTTACTTTTAATTTGTAT
* * *
1427180 TCAAATAAA-CACTTAACTTTTAATTTGT-G
1 TCAAATAAATTA-TTTACTTTTAATTTGTAT
* *
1427209 TCTAAATAAATT-TTTAATATTTCATTTGTACT
1 TC-AAATAAATTATTTACT-TTTAATTTGTA-T
1427241 T-AAATAAATTATT
1 TCAAATAAATTATT
1427254 GATATAAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
29 7 0.12
30 48 0.83
31 2 0.03
32 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (30 bp):
TCAAATAAATTATTTACTTTTAATTTGTAT
Found at i:1433411 original size:23 final size:25
Alignment explanation
Indices: 1433371--1433416 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
1433361 TTAATCATTA
1433371 TATATAAGTAAAAATAAAAAAATTT
1 TATATAAGTAAAAATAAAAAAATTT
*
1433396 TATATAA-T-AAATTAAAAAAAT
1 TATATAAGTAAAAATAAAAAAAT
1433417 AATTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
TATATAAGTAAAAATAAAAAAATTT
Found at i:1436552 original size:18 final size:18
Alignment explanation
Indices: 1436508--1436552 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1436498 ATATAATTTA
*
1436508 AAATTTTAATAAAAATAT
1 AAATTTTATTAAAAATAT
*
1436526 ATATTTTATTAAAAATAT
1 AAATTTTATTAAAAATAT
1436544 AAATTTTAT
1 AAATTTTAT
1436553 ATTTTTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTTATTAAAAATAT
Found at i:1441169 original size:7 final size:7
Alignment explanation
Indices: 1441157--1441189 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1441147 ACCTTGGAAA
*
1441157 GACCATT
1 GACCATC
1441164 GACCATC
1 GACCATC
1441171 GACCATC
1 GACCATC
1441178 GACCATC
1 GACCATC
1441185 GACCA
1 GACCA
1441190 CGCATGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.30, C:0.39, G:0.15, T:0.15
Consensus pattern (7 bp):
GACCATC
Found at i:1467858 original size:2 final size:2
Alignment explanation
Indices: 1467851--1467882 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1467841 TCGATTCGAT
1467851 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1467883 TCAAATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1468287 original size:19 final size:19
Alignment explanation
Indices: 1468265--1468302 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1468255 TATTTTACTC
1468265 TCTATATTTTATTTT-TTTG
1 TCTATATTTT-TTTTATTTG
*
1468284 TCTATCTTTTTTTTATTTG
1 TCTATATTTTTTTTATTTG
1468303 AGATGTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (19 bp):
TCTATATTTTTTTTATTTG
Found at i:1468351 original size:17 final size:18
Alignment explanation
Indices: 1468329--1468370 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
1468319 TGTTCCATTT
1468329 TTTTTTAATA-TCTAAAA
1 TTTTTTAATATTCTAAAA
* *
1468346 TTTTTTTATATTTTAAAA
1 TTTTTTAATATTCTAAAA
1468364 TTATTTT
1 TT-TTTT
1468371 TTTATAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTAATATTCTAAAA
Found at i:1468351 original size:18 final size:18
Alignment explanation
Indices: 1468328--1468371 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1468318 ATGTTCCATT
1468328 TTTTTTTA-ATATCTAAAA
1 TTTTTTTATAT-TCTAAAA
*
1468346 TTTTTTTATATTTTAAAA
1 TTTTTTTATATTCTAAAA
1468364 TTATTTTT
1 TT-TTTTT
1468372 TTATAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTTATATTCTAAAA
Found at i:1471557 original size:2 final size:2
Alignment explanation
Indices: 1471550--1471595 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1471540 ACCTTTCAAC
* *
1471550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1471592 AT AT
1 AT AT
1471596 GTCCTCGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1471926 original size:14 final size:14
Alignment explanation
Indices: 1471894--1471927 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1471884 ATAATTAATC
*
1471894 AAAAAATATAAAAA
1 AAAAAATAAAAAAA
*
1471908 CAAAAATAAAAAAA
1 AAAAAATAAAAAAA
1471922 AAAAAA
1 AAAAAA
1471928 CAAAGAGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAATAAAAAAA
Found at i:1476355 original size:16 final size:16
Alignment explanation
Indices: 1476334--1476364 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1476324 TTATTTAATT
1476334 ATTTAAAATTTAAAAA
1 ATTTAAAATTTAAAAA
1476350 ATTTAAAATTTAAAA
1 ATTTAAAATTTAAAA
1476365 TATAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTAAAATTTAAAAA
Found at i:1476514 original size:15 final size:15
Alignment explanation
Indices: 1476496--1476526 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1476486 ATATTTAATT
*
1476496 TAATTTAATTTTAAA
1 TAATTTAATTTAAAA
1476511 TAATTTAATTTAAAA
1 TAATTTAATTTAAAA
1476526 T
1 T
1476527 TAAGCGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTAATTTAAAA
Found at i:1476529 original size:20 final size:20
Alignment explanation
Indices: 1476491--1476529 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1476481 ATAAAATATT
**
1476491 TAATTTAATTTAATTTTAAA
1 TAATTTAATTTAAAATTAAA
1476511 TAATTTAATTTAAAATTAA
1 TAATTTAATTTAAAATTAA
1476530 GCGAACCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTTAATTTAAAATTAAA
Found at i:1476897 original size:3 final size:3
Alignment explanation
Indices: 1476889--1476918 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1476879 AGACACAAGG
1476889 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1476919 CAATTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1478573 original size:104 final size:103
Alignment explanation
Indices: 1478450--1478652 Score: 302
Period size: 104 Copynumber: 2.0 Consensus size: 103
1478440 TACGCACATA
* * * *
1478450 CTCATACAGTTAACTTACCTATGAGAAAAACAATAGAAATTATTTGGTTAG-CTGTTTTCTTATT
1 CTCATACACTTAACTTACCTATGAGAAAAACAACAGAAAGTATTTGGTTAGCCT-TTTCCTTATT
*
1478514 AATTTGTTGCTTTGATT-AAATTTTAAAGATCTAAACACG
65 AATTTGTTGCTTTGATTAAAAATTT-AAGATCTAAACACG
*
1478553 CTCATACCACTTAACTTACCTATGAGAAAAACAACAGAAAGTATTTGGTTAGCCTTTTCCTTGTT
1 CTCATA-CACTTAACTTACCTATGAGAAAAACAACAGAAAGTATTTGGTTAGCCTTTTCCTTATT
*
1478618 TATTTGTTGCTTTGATTAAAAATTTAAGATCTAAA
65 AATTTGTTGCTTTGATTAAAAATTTAAGATCTAAA
1478653 AGTTTTAATA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
103 6 0.07
104 76 0.84
105 8 0.09
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (103 bp):
CTCATACACTTAACTTACCTATGAGAAAAACAACAGAAAGTATTTGGTTAGCCTTTTCCTTATTA
ATTTGTTGCTTTGATTAAAAATTTAAGATCTAAACACG
Found at i:1479389 original size:22 final size:22
Alignment explanation
Indices: 1479364--1479405 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1479354 TTTTATATAT
1479364 TTAATTTAAAAAT-TAATATTTA
1 TTAA-TTAAAAATATAATATTTA
*
1479386 TTAATTAATAATATAATATT
1 TTAATTAAAAATATAATATT
1479406 ATTTGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTAAAAATATAATATTTA
Found at i:1479418 original size:26 final size:26
Alignment explanation
Indices: 1479378--1479439 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
1479368 TTTAAAAATT
*
1479378 AATATTT-ATTAATTAATAATATAAT
1 AATATTTGATTAATTAATAATATAAA
* *
1479403 ATTATTTGATTTATTAATAATATAAA
1 AATATTTGATTAATTAATAATATAAA
1479429 AATATTTGATT
1 AATATTTGATT
1479440 CACTAAGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (26 bp):
AATATTTGATTAATTAATAATATAAA
Found at i:1479498 original size:14 final size:15
Alignment explanation
Indices: 1479472--1479500 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1479462 TAACCTTTTT
1479472 TATTATATAGAAATA
1 TATTATATAGAAATA
1479487 TATTAT-TAGAAATA
1 TATTATATAGAAATA
1479501 GAATTATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
TATTATATAGAAATA
Found at i:1489697 original size:14 final size:14
Alignment explanation
Indices: 1489678--1489710 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1489668 TTACTTACTG
1489678 AAATTTTAATTTGA
1 AAATTTTAATTTGA
*
1489692 AAATTTTAATTTTA
1 AAATTTTAATTTGA
1489706 AAATT
1 AAATT
1489711 AGCGTTGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
AAATTTTAATTTGA
Found at i:1490175 original size:26 final size:27
Alignment explanation
Indices: 1490105--1490178 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
1490095 ATACGACATA
*
1490105 AATTTATAAAAA-AAACAAT-ATAATAT
1 AATTT-TAAAAATAAAAAATAATAATAT
1490131 AATTTTAAATTTAAT-AAAAATAAT-ATAT
1 AATTTTAAA---AATAAAAAATAATAATAT
1490159 AATTTTAAAAATAAAAAATA
1 AATTTTAAAAATAAAAAATA
1490179 TATTTTGTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
25 7 0.17
26 12 0.29
28 20 0.49
29 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (27 bp):
AATTTTAAAAATAAAAAATAATAATAT
Found at i:1496092 original size:22 final size:22
Alignment explanation
Indices: 1496064--1496105 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1496054 TATCATTATC
*
1496064 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
1496086 CTTAATTCTAGAGATACAAA
1 CTTAATTCTAGAGATACAAA
1496106 AATTAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:1504316 original size:104 final size:104
Alignment explanation
Indices: 1504136--1504348 Score: 408
Period size: 104 Copynumber: 2.0 Consensus size: 104
1504126 GGACTCTCTC
*
1504136 TTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGGCCACCCT
1 TTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCT
1504201 GCCTACCTCCCTCGAGGTGCTTGGCGTGGATCGAACGGT
66 GCCTACCTCCCTCGAGGTGCTTGGCGTGGATCGAACGGT
1504240 TTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCT
1 TTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCT
*
1504305 GTCTACCTCCCTCGAGGTGCTTGGCGTGGATCGAACGGT
66 GCCTACCTCCCTCGAGGTGCTTGGCGTGGATCGAACGGT
1504344 TTAGG
1 TTAGG
1504349 GCTGGTTCTG
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 107 1.00
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.22
Consensus pattern (104 bp):
TTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCT
GCCTACCTCCCTCGAGGTGCTTGGCGTGGATCGAACGGT
Found at i:1511057 original size:25 final size:25
Alignment explanation
Indices: 1511028--1511089 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
1511018 TAAAATGGTT
* * *
1511028 ATGAAGGCTTTAA-CAGGGTTTGGCA
1 ATGAAGGC-CTAAGCAGGGTTCGACA
1511053 ATGAAGGCCTAAGCAGGGTTCGACA
1 ATGAAGGCCTAAGCAGGGTTCGACA
1511078 ATGAAGGCCTAA
1 ATGAAGGCCTAA
1511090 AAATAAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 3 0.09
25 30 0.91
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (25 bp):
ATGAAGGCCTAAGCAGGGTTCGACA
Found at i:1511369 original size:22 final size:22
Alignment explanation
Indices: 1511341--1511382 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1511331 TATCATTATC
* *
1511341 CTTAATTTTAGGGATACAAACA
1 CTTAATTCTAGAGATACAAACA
1511363 CTTAATTCTAGAGATACAAA
1 CTTAATTCTAGAGATACAAA
1511383 AATAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAACA
Found at i:1526464 original size:22 final size:22
Alignment explanation
Indices: 1526436--1526477 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1526426 TATCATTGTC
*
1526436 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
1526458 CTTAATTCTAGAGATACAAA
1 CTTAATTCTAGAGATACAAA
1526478 AATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:1530487 original size:22 final size:22
Alignment explanation
Indices: 1530459--1530500 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1530449 TATCATTGTC
*
1530459 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
1530481 CTTAATTCTAGAGATACAAA
1 CTTAATTCTAGAGATACAAA
1530501 AATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:1537108 original size:15 final size:15
Alignment explanation
Indices: 1537085--1537114 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1537075 AAGCTTCTTT
*
1537085 TTTCTCTTTCTTTTC
1 TTTCACTTTCTTTTC
1537100 TTTCACTTTCTTTTC
1 TTTCACTTTCTTTTC
1537115 AACCAAACGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCACTTTCTTTTC
Found at i:1542216 original size:17 final size:19
Alignment explanation
Indices: 1542187--1542222 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1542177 GTGTGTTTAA
1542187 TTTTAAAATTTAAA-TTTT
1 TTTTAAAATTTAAAGTTTT
1542205 TTTTAAAA-TTAAAGTTTT
1 TTTTAAAATTTAAAGTTTT
1542223 ATGACTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTAAAATTTAAAGTTTT
Found at i:1548695 original size:3 final size:3
Alignment explanation
Indices: 1548689--1548713 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1548679 TTCCAAACCT
1548689 GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA G
1548714 TTAATGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:1552850 original size:3 final size:3
Alignment explanation
Indices: 1552836--1552902 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
1552826 ACCAATATAT
* * * * * * *
1552836 GCA GCA GAA GCA GCA GCA GCTA -CT GCA ACA CCA ACA GCA ACA ACA
1 GCA GCA GCA GCA GCA GCA GC-A GCA GCA GCA GCA GCA GCA GCA GCA
1552881 GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA G
1552903 GTGCACCAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 51 0.98
4 1 0.02
ACGTcount: A:0.39, C:0.33, G:0.25, T:0.03
Consensus pattern (3 bp):
GCA
Found at i:1562106 original size:26 final size:25
Alignment explanation
Indices: 1562051--1562117 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
1562041 TTCGATTAAA
1562051 ATTTTTTTA-AAATTTATGCAAAAT
1 ATTTTTTTATAAATTTATGCAAAAT
* **
1562075 A-ATTTTTATAAATATTATGTGAAAT
1 ATTTTTTTATAAAT-TTATGCAAAAT
1562100 ATTTTTTTATAAATTTAT
1 ATTTTTTTATAAATTTAT
1562118 TAAATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 14 0.39
26 11 0.31
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (25 bp):
ATTTTTTTATAAATTTATGCAAAAT
Found at i:1564648 original size:22 final size:20
Alignment explanation
Indices: 1564603--1564654 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
1564593 TGATATTTTT
1564603 AAATA-TTTATATTTAAAAA
1 AAATATTTTATATTTAAAAA
*
1564622 TAATATTTTATATTTAAAAAAA
1 AAATATTTTATATTT--AAAAA
1564644 AAATATTTTAT
1 AAATATTTTAT
1564655 TAATTTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 9 0.32
22 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATTTTATATTTAAAAA
Found at i:1564655 original size:20 final size:21
Alignment explanation
Indices: 1564603--1564655 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1564593 TGATATTTTT
*
1564603 AAATATTTATATTTAAAAATA
1 AAATATTTATATTTAAAAAAA
*
1564624 ATAT-TTTATATTTAAAAAAA
1 AAATATTTATATTTAAAAAAA
1564644 AAATATTT-TATT
1 AAATATTTATATT
1564656 AATTTCGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATATTTATATTTAAAAAAA
Found at i:1567127 original size:2 final size:2
Alignment explanation
Indices: 1567091--1567116 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1567081 TATTTATCCT
1567091 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
1567117 AAGTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1578966 original size:21 final size:22
Alignment explanation
Indices: 1578933--1578973 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1578923 ATGAAAGTTT
1578933 TTAGCCTTCAGGGGATCGATCA
1 TTAGCCTTCAGGGGATCGATCA
*
1578955 TTAGTCTT-AGGGGATCGAT
1 TTAGCCTTCAGGGGATCGAT
1578974 TGGTTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (22 bp):
TTAGCCTTCAGGGGATCGATCA
Found at i:1580042 original size:45 final size:45
Alignment explanation
Indices: 1579978--1580064 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
1579968 AAGTTTAGAT
*
1579978 ACTTATTAAAGTAAAATCATAAAAAGTCTTTAAAAATCTTAATGA
1 ACTTATTAAAGTAAAATCATAAAAAGTCCTTAAAAATCTTAATGA
*
1580023 ACTTATTAAAGTAAAATCATAACAAGTCCTTAAAAATCTTAA
1 ACTTATTAAAGTAAAATCATAAAAAGTCCTTAAAAATCTTAA
1580065 AAGAACTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (45 bp):
ACTTATTAAAGTAAAATCATAAAAAGTCCTTAAAAATCTTAATGA
Found at i:1582537 original size:28 final size:28
Alignment explanation
Indices: 1582506--1582566 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
1582496 AATTAATAAA
* * *
1582506 TTTATAATTTAAATATTACATTAAATTT
1 TTTATAATTTAAATATCACATCAAATAT
*
1582534 TTTAAAATTTAAATATCACATCAAATAT
1 TTTATAATTTAAATATCACATCAAATAT
1582562 TTTAT
1 TTTAT
1582567 TAAAATTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (28 bp):
TTTATAATTTAAATATCACATCAAATAT
Found at i:1585697 original size:265 final size:265
Alignment explanation
Indices: 1585224--1585751 Score: 675
Period size: 265 Copynumber: 2.0 Consensus size: 265
1585214 ATAGAGAAAT
* * *
1585224 AAAATAACAACTACAAATATTCTTATTTTCATATGATTATTACTATGCATTTTTTTTATATAATA
1 AAAATAACAACTACAAATATCCTTATTTTCATATGATTATTACTATGCATTTTTTGTATACAATA
* * * * * * *
1585289 GGCCGCAATATGTAAAAAAGGAAAGAGATTGAAAATGTTGAAATTTTAATTTTAAAAATTATTAA
66 GACCACAATATGGAAAAAAGAAAAGAGATTGAAAAGGTTAAAATTTGAATTTTAAAAATTATTAA
* * *
1585354 ATATCACCTCTTAAAAATAATTGTATAGATCAATTGAACTAAACTTCAACCTTATTTTATATAAT
131 ATATCACCTCTTAAAAATAATTATATAAATCAATTAAACTAAACTTCAACCTTATTTTATATAAT
* * * * *
1585419 TTATTTATTTGATTTTCATGTAAAACTATAGAATTTGGTTGCTCTATAATTTTCAACTTCTAACC
196 TCATTTATTTGATTTTCATGTAAAACTACACAATTTAGTTGCTCTATAATATTCAACTTCTAACC
1585484 TAGCA
261 TAGCA
* * *
1585489 AAAATAACAATTACAAATATCCTTATTTTCATATGATTATTATTATGTATTTTTTGTATACAATA
1 AAAATAACAACTACAAATATCCTTATTTTCATATGATTATTACTATGCATTTTTTGTATACAATA
* * *
1585554 GATCACAATATGGAAAAAAGAAAAGATG-TTGAAAGGGTTAAAATTTGAATTTTAAAAATTATTG
66 GACCACAATATGGAAAAAAGAAAAGA-GATTGAAAAGGTTAAAATTTGAATTTTAAAAATTATTA
* * ** * * * * *
1585618 GATATTATTTTTTAAATATGATTATATAAA-CTAATTAAATTAAATTTCAA-CTTCATTTTATAT
130 AATATCACCTCTTAAAAATAATTATATAAATC-AATTAAACTAAACTTCAACCTT-ATTTTATAT
* ** *
1585681 AATTCATTTATTTGATTTTCATGTAAAACTACACAATTTAGTTGCTTTATCCTATTCAGCTTCTA
193 AATTCATTTATTTGATTTTCATGTAAAACTACACAATTTAGTTGCTCTATAATATTCAACTTCTA
1585746 ACCTAG
258 ACCTAG
1585752 TTAAATACAT
Statistics
Matches: 223, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
264 4 0.02
265 218 0.98
266 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (265 bp):
AAAATAACAACTACAAATATCCTTATTTTCATATGATTATTACTATGCATTTTTTGTATACAATA
GACCACAATATGGAAAAAAGAAAAGAGATTGAAAAGGTTAAAATTTGAATTTTAAAAATTATTAA
ATATCACCTCTTAAAAATAATTATATAAATCAATTAAACTAAACTTCAACCTTATTTTATATAAT
TCATTTATTTGATTTTCATGTAAAACTACACAATTTAGTTGCTCTATAATATTCAACTTCTAACC
TAGCA
Found at i:1585834 original size:19 final size:20
Alignment explanation
Indices: 1585788--1585834 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
1585778 ATTCTTTTTA
1585788 CATATCTTTAAATAAAAAAAT
1 CATAT-TTTAAATAAAAAAAT
* * *
1585809 AAAATTTTAAA-AAATAAAT
1 CATATTTTAAATAAAAAAAT
1585828 CATATTT
1 CATATTT
1585835 AAACGAAACT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 12 0.57
20 6 0.29
21 3 0.14
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
CATATTTTAAATAAAAAAAT
Found at i:1585925 original size:21 final size:21
Alignment explanation
Indices: 1585886--1585926 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1585876 TGTTTAATTA
* * *
1585886 AATTAAATGAATTTGTTCATT
1 AATTAAATAAATATATTCATT
1585907 AATTAAATAAATATATTCAT
1 AATTAAATAAATATATTCAT
1585927 AAATATATAT
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:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
AATTAAATAAATATATTCATT
Found at i:1586886 original size:7 final size:7
Alignment explanation
Indices: 1586874--1586906 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
1586864 TTTAACATAA
1586874 TATAATT
1 TATAATT
1586881 TATAATT
1 TATAATT
1586888 TATAATT
1 TATAATT
1586895 TATAATT
1 TATAATT
1586902 TATAA
1 TATAA
1586907 ATATATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TATAATT
Found at i:1586923 original size:21 final size:20
Alignment explanation
Indices: 1586872--1586924 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
1586862 ATTTTAACAT
*
1586872 AATATAATTTATAATTTATA
1 AATATAATTTATAATATATA
*
1586892 ATTTATAATTTATAAATATATA
1 A-ATATAATTTAT-AATATATA
*
1586914 AATATTATTTA
1 AATATAATTTA
1586925 AATTTTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 18 0.67
22 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATAATTTATAATATATA
Found at i:1587029 original size:14 final size:14
Alignment explanation
Indices: 1587010--1587039 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1587000 TGATACTCAA
1587010 ATAATTATTATTAT
1 ATAATTATTATTAT
*
1587024 ATAATTATTTTTAT
1 ATAATTATTATTAT
1587038 AT
1 AT
1587040 TAATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATAATTATTATTAT
Found at i:1587180 original size:20 final size:20
Alignment explanation
Indices: 1587157--1587208 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1587147 TAATTTTGTA
1587157 ATATATATTAAAATTTAAAT
1 ATATATATTAAAATTTAAAT
1587177 ATATATATTAAAATTTAAAT
1 ATATATATTAAAATTTAAAT
1587197 ATATATATTAAA
1 ATATATATTAAA
1587209 TACATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATATATTAAAATTTAAAT
Found at i:1587993 original size:14 final size:16
Alignment explanation
Indices: 1587974--1588005 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1587964 TAAAGTGATC
1587974 AAACAC-AAA-TATTA
1 AAACACTAAAGTATTA
1587988 AAACACTAAAGTATTA
1 AAACACTAAAGTATTA
1588004 AA
1 AA
1588006 CTAAAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (16 bp):
AAACACTAAAGTATTA
Found at i:1590873 original size:105 final size:105
Alignment explanation
Indices: 1590682--1590881 Score: 321
Period size: 105 Copynumber: 1.9 Consensus size: 105
1590672 ATATCAATAC
* *
1590682 CATGATAATACTTGACATAACCTAATTCACAAAATCAATGGTCTCCATGAATTTTTTTTTGTAAG
1 CATGATAAAACTTGACATAACCCAATTCACAAAATCAATGGTCTCCATGAATTTTTTTTTGTAAG
*
1590747 ATAAATTTTAGGAATAGATAGATTATTCAATTTTTCAGGT
66 ATAAATTTTAGAAATAGATAGATTATTCAATTTTTCAGGT
* * *
1590787 CATGATAAAACTTGACATGACCCAATTCACATAATCAATGGTCTCCATGATTTTTTTTTCTGTAA
1 CATGATAAAACTTGACATAACCCAATTCACAAAATCAATGGTCTCCATGAATTTTTTTT-TGTAA
*
1590852 GATAAA-TTTAGAAATATATAGATTATTCAA
65 GATAAATTTTAGAAATAGATAGATTATTCAA
1590882 CCTCTCAAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
105 76 0.87
106 11 0.13
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (105 bp):
CATGATAAAACTTGACATAACCCAATTCACAAAATCAATGGTCTCCATGAATTTTTTTTTGTAAG
ATAAATTTTAGAAATAGATAGATTATTCAATTTTTCAGGT
Found at i:1593555 original size:23 final size:24
Alignment explanation
Indices: 1593509--1593565 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
1593499 ATATTAAATG
*
1593509 ATAATTAATAATTAATTATATTATA
1 ATAATT-ATAAGTAATTATATTATA
1593534 ATAATTATAAGTAA-TATATTATA
1 ATAATTATAAGTAATTATATTATA
*
1593557 ATAAGTATA
1 ATAATTATA
1593566 TAAAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 17 0.57
24 7 0.23
25 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
ATAATTATAAGTAATTATATTATA
Found at i:1593572 original size:23 final size:22
Alignment explanation
Indices: 1593525--1593574 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
1593515 AATAATTAAT
1593525 TATATTATAATAATTATAAGTAA
1 TATATTATAATAATTATAAG-AA
1593548 TATATTATAATAAGTATATAA-AA
1 TATATTATAATAA-T-TATAAGAA
1593571 TATA
1 TATA
1593575 AAAGAGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 19 0.76
24 1 0.04
25 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TATATTATAATAATTATAAGAA
Found at i:1594639 original size:15 final size:15
Alignment explanation
Indices: 1594621--1594657 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1594611 TATTTTTTAT
1594621 TTAAAATTATTAA-AA
1 TTAAAATT-TTAATAA
1594636 TTAAAATTTTAATAA
1 TTAAAATTTTAATAA
1594651 TTAAAAT
1 TTAAAAT
1594658 AAAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAAATTTTAATAA
Found at i:1594655 original size:21 final size:21
Alignment explanation
Indices: 1594629--1594670 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1594619 ATTTAAAATT
* *
1594629 ATTAAAATTAAAATTTTAATA
1 ATTAAAATAAAAAATTTAATA
1594650 ATTAAAATAAAAAATTTAATA
1 ATTAAAATAAAAAATTTAATA
1594671 TTCCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAAAATAAAAAATTTAATA
Found at i:1595488 original size:2 final size:2
Alignment explanation
Indices: 1595481--1595513 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1595471 ACAAAGCCAG
1595481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1595514 ATCAAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1597303 original size:12 final size:12
Alignment explanation
Indices: 1597288--1597326 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1597278 TTTTTTAGTT
1597288 TAATATTAATAA
1 TAATATTAATAA
* *
1597300 TAATCTTGATAA
1 TAATATTAATAA
1597312 TAATATTAATAA
1 TAATATTAATAA
1597324 TAA
1 TAA
1597327 CATTGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:1598327 original size:17 final size:16
Alignment explanation
Indices: 1598305--1598356 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
1598295 AAATTTTTTT
1598305 TTATTTTTTATATATTA
1 TTATTTTTTATAT-TTA
1598322 TTATTTTTGT-TATTTTGA
1 TTATTTTT-TATA-TTT-A
*
1598340 GTATTTTTTATATTTA
1 TTATTTTTTATATTTA
1598356 T
1 T
1598357 GCATGATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 1 0.03
17 16 0.55
18 12 0.41
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTATTTTTTATATTTA
Found at i:1598780 original size:16 final size:16
Alignment explanation
Indices: 1598761--1598860 Score: 66
Period size: 16 Copynumber: 6.4 Consensus size: 16
1598751 CTAGGATTAT
1598761 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
1598777 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
* *
1598793 -AAACTCCTTAAAATCT
1 AAAAC-CCCTAAAATCC
* *
1598809 GAAA-CCTTAAAA-CC
1 AAAACCCCTAAAATCC
*
1598823 TTAAAA-CCCTTAAATCC
1 --AAAACCCCTAAAATCC
*
1598840 -AAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
1598855 AAAACC
1 AAAACC
1598861 TTAAAATCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
14 4 0.06
15 20 0.31
16 36 0.55
17 5 0.08
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:1598837 original size:47 final size:47
Alignment explanation
Indices: 1598777--1598866 Score: 130
Period size: 46 Copynumber: 1.9 Consensus size: 47
1598767 CCTAAAATCC
* *
1598777 AAAATCCCTTAAATCCAAACTCCTTAAAA-TCTGAAACCTTAAAACCTT
1 AAAATCCCTTAAATCCAAAC-CCCTAAAATTC-AAAACCTTAAAACCTT
1598825 AAAA-CCCTTAAATCCAAACCCCTAAAATTCAAAACCTTAAAA
1 AAAATCCCTTAAATCCAAACCCCTAAAATTCAAAACCTTAAAA
1598867 TCTGATTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 18 0.46
47 17 0.44
48 4 0.10
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (47 bp):
AAAATCCCTTAAATCCAAACCCCTAAAATTCAAAACCTTAAAACCTT
Found at i:1598852 original size:15 final size:15
Alignment explanation
Indices: 1598762--1598868 Score: 65
Period size: 15 Copynumber: 6.9 Consensus size: 15
1598752 TAGGATTATA
1598762 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
* *
1598777 AAAATCCCTTAAATCC
1 -AAACCCCTAAAATCC
* *
1598793 AAACTCCTTAAAATCTG
1 AAAC-CCCTAAAATC-C
*
1598810 AAA-CCTTAAAA-CC
1 AAACCCCTAAAATCC
* *
1598823 TTAAAACCCTTAAATCC
1 --AAACCCCTAAAATCC
*
1598840 AAACCCCTAAAATTC
1 AAACCCCTAAAATCC
* *
1598855 AAAACCTTAAAATC
1 AAACCCCTAAAATC
1598869 TGATTCTTCA
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
14 1 0.01
15 37 0.53
16 27 0.39
17 5 0.07
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:1600559 original size:22 final size:21
Alignment explanation
Indices: 1600533--1600581 Score: 89
Period size: 22 Copynumber: 2.3 Consensus size: 21
1600523 TTATTCAAAA
1600533 TTTTAGAATAGAATGAATAAT
1 TTTTAGAATAGAATGAATAAT
1600554 TATTTAGAATAGAATGAATAAT
1 T-TTTAGAATAGAATGAATAAT
1600576 TTTTAG
1 TTTTAG
1600582 CGTTATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TTTTAGAATAGAATGAATAAT
Found at i:1604973 original size:20 final size:20
Alignment explanation
Indices: 1604950--1604991 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1604940 TGAATACCTC
* *
1604950 CACACCTTTTTAAATACTTT
1 CACACATTTTCAAATACTTT
1604970 CACACATTTTCAAATACTTT
1 CACACATTTTCAAATACTTT
1604990 CA
1 CA
1604992 TGATCCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (20 bp):
CACACATTTTCAAATACTTT
Found at i:1606000 original size:13 final size:14
Alignment explanation
Indices: 1605978--1606012 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1605968 GTCAAATGTT
*
1605978 TCAAAAAAAAAAAG
1 TCAAAGAAAAAAAG
1605992 -CAAAGAAAAAAAG
1 TCAAAGAAAAAAAG
1606005 TCAAAGAA
1 TCAAAGAA
1606013 TGCTCCTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.74, C:0.09, G:0.11, T:0.06
Consensus pattern (14 bp):
TCAAAGAAAAAAAG
Found at i:1607849 original size:109 final size:108
Alignment explanation
Indices: 1607469--1608010 Score: 397
Period size: 111 Copynumber: 5.0 Consensus size: 108
1607459 TGATTCGTTG
* * * * * * * * *
1607469 TGTTATCCCGATCGATTTCTTCTTTTCT-ACTTACGGTGTTATCTCAATCAATTCTGTAAGATCT
1 TGTTATCCTGATCGA-TTCTTATTTTTTGACTTAC-GTATTGTCTCAGTTAATTTTGTAAGACCT
* ** *
1607533 CC-GGACATGATTTCTAAGACCTCCAAATATAAATTCGATTCGA-GG
64 CCAGG-CATGATTTCTAAGACCTCCGAGCATAAATTCGATTC-ACGA
* * ** *
1607578 TATTAT-CTCGATCGATTCTTAATTTTTTGACTTACGATGTTGTCTC-GATCGATTTTATAAGAC
1 TGTTATCCT-GATCGATTCTT-ATTTTTTGACTTACG-TATTGTCTCAG-TTAATTTTGTAAGAC
* * * * * * * * ** * * *
1607641 TTTCGGGCATGATTTTGTAAGATCTTCGGGTATAGTTTTGATTCGCAA
62 CTCCAGGCATGA-TTTCTAAGACCTCCGAGCATAAATTCGATTCACGA
*
1607689 TGTTAT-CTCGATCGATT-TT-TTTTTT-ACTTACGATGTTGTCTCAGTTAATTTTGTAAGACCT
1 TGTTATCCT-GATCGATTCTTATTTTTTGACTTACG-TATTGTCTCAGTTAATTTTGTAAGACCT
* * * * * *
1607750 TCGGGCATAATTT-TAAGACCTCCAAGCATGAATTCGATTTACGA
64 CCAGGCATGATTTCTAAGACCTCCGAGCATAAATTCGATTCACGA
* *
1607794 TGTTATCCTGATCGATTCTTAATTTTTTGACTTACAGTATTGTCTTAGTTGATTTTGTAAGACCT
1 TGTTATCCTGATCGATTCTT-ATTTTTTGACTTAC-GTATTGTCTCAGTTAATTTTGTAAGACCT
* * * *
1607859 CCAGGCACGATTCTGTAAGACCTCCGAGCATAAATTTGATTCACGG
64 CCAGGCATGATT-TCTAAGACCTCCGAGCATAAATTCGATTCACGA
* * * *
1607905 TGTTATCCT-ACTTGATTCTTGATTTTTTGACTTACG-ACGTTGTCCCAGTCAATTCTGTAAGAC
1 TGTTATCCTGA-TCGATTCTT-ATTTTTTGACTTACGTA--TTGTCTCAGTTAATTTTGTAAGAC
*
1607968 CTCCAAGCATGATTTCTAAGACCTCCGAGCATAAATTCGATTC
62 CTCCAGGCATGATTTCTAAGACCTCCGAGCATAAATTCGATTC
1608011 GTAATTTTAT
Statistics
Matches: 348, Mismatches: 65, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
105 33 0.09
106 7 0.02
107 39 0.11
108 19 0.05
109 57 0.16
110 65 0.19
111 128 0.37
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (108 bp):
TGTTATCCTGATCGATTCTTATTTTTTGACTTACGTATTGTCTCAGTTAATTTTGTAAGACCTCC
AGGCATGATTTCTAAGACCTCCGAGCATAAATTCGATTCACGA
Found at i:1607878 original size:216 final size:216
Alignment explanation
Indices: 1607442--1608052 Score: 606
Period size: 216 Copynumber: 2.8 Consensus size: 216
1607432 GATATTTAAA
** *
1607442 ATCTTCGAGTATAATTTTGATTCGTTGTGTTATCCCGATCGATTTCTTCTTTTCTACTTACGGTG
1 ATCTTCGAGTATAATTTTGATTCGCAGTGTTAT-CCGATCGATTT-TT-TTTT-TACTTACGATG
* * * * **
1607507 TTATCTCAATCAATTCTGTAAGATCTCCGGACATGATTTCTAAGACCTCCAAATATAAATTCGA-
62 TTGTCTCAGTCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTCGAT
* *
1607571 TTCGAGGTATTATCTCGATCGATTCTTAATTTTTTGACTTACGATGTTGTCTCGATCGATTTTAT
127 TTCGA-GTATTATCTCGATCGATTCTTAATTTTTTGACTTACGATATTGTCTAGATCGATTTTAT
* * * * *
1607636 AAGACTTTCGGGCATGATTTTGTAAG
191 AAGACCTCCAGGCACGATTCTGTAAG
* * *
1607662 ATCTTCGGGTATAGTTTTGATTCGCAATGTTATCTCGATCGATTTTTTTTTTACTTACGATGTTG
1 ATCTTCGAGTATAATTTTGATTCGCAGTGTTATC-CGATCGATTTTTTTTTTACTTACGATGTTG
* * * * *
1607727 TCTCAGTTAATTTTGTAAGACCTTCGGGCATAATTT-TAAGACCTCCAAGCATGAATTCGATTTA
65 TCTCAGTCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTCGATTT-
* * *
1607791 CGA-TGTTATC-CTGATCGATTCTTAATTTTTTGACTTAC-AGTATTGTCTTAG-TTGATTTTGT
129 CGAGTATTATCTC-GATCGATTCTTAATTTTTTGACTTACGA-TATTGTC-TAGATCGATTTTAT
1607852 AAGACCTCCAGGCACGATTCTGTAAG
191 AAGACCTCCAGGCACGATTCTGTAAG
* * * * * * * * *
1607878 ACCTCCGAGCATAAATTTGATTCACGGTGTTATCCTACTTGATTCTTGATTTTTTGACTTACGAC
1 ATCTTCGAGTATAATTTTGATTCGCAGTGTTATCCGA-TCGATT-TT--TTTTTT-ACTTACGAT
* ** *
1607943 GTTGTCCCAGTCAATTCTGTAAGACCTCCAAGCATGATTTCTAAGACCTCCGAGCATAAATTCGA
61 GTTGTCTCAGTCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTCGA
* * * * * * *
1608008 -TTCGTAATTTTATCCCAATCGATTTTTAATTTTTTTACTTGCGAT
126 TTTCG-AGTATTATCTCGATCGATTCTTAATTTTTTGACTTACGAT
1608053 TTAGTCCCAG
Statistics
Matches: 322, Mismatches: 53, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
215 4 0.01
216 118 0.37
217 47 0.15
218 7 0.02
219 11 0.03
220 82 0.25
221 51 0.16
222 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (216 bp):
ATCTTCGAGTATAATTTTGATTCGCAGTGTTATCCGATCGATTTTTTTTTTACTTACGATGTTGT
CTCAGTCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCAAGCATAAATTCGATTTCG
AGTATTATCTCGATCGATTCTTAATTTTTTGACTTACGATATTGTCTAGATCGATTTTATAAGAC
CTCCAGGCACGATTCTGTAAG
Found at i:1608332 original size:34 final size:34
Alignment explanation
Indices: 1608294--1608652 Score: 154
Period size: 34 Copynumber: 10.6 Consensus size: 34
1608284 TGATTCACGG
1608294 TTTAATCTCGATCTCTTTATTCTCTGACTTATGA
1 TTTAATCTCGATCTCTTTATTCTCTGACTTATGA
*** *
1608328 TTTAATCTCGATCTCTTTAATTC-AAAATCGTA-G-
1 TTTAATCTCGATCTCTTT-ATTCTCTGA-CTTATGA
* * * *
1608361 TTTAATCTCGAT-TGTTATTATTTTTTGACTCATGA
1 TTTAATCTCGATCT-CT-TTATTCTCTGACTTATGA
1608396 TTTAATCTCGATCTCTTTATTCTCTGA-TTCATGA
1 TTTAATCTCGATCTCTTTATTCTCTGACTT-ATGA
* * ** * *
1608430 TTTAATCCCGATCTCTTTAAT-TCAAAATCAT-A
1 TTTAATCTCGATCTCTTTATTCTCTGACTTATGA
* * * **
1608462 GTTTAATCTCGAT-TGTTGTTATTTTTTGACTCGTGA
1 -TTTAATCTCGATCT-CT-TTATTCTCTGACTTATGA
* * *
1608498 TTTAATCCCGATCTCTTTATTCTTTGA-TT-CGCA
1 TTTAATCTCGATCTCTTTATTCTCTGACTTATG-A
* * *** *
1608531 GTTCAATCCCGATCTCTTTAATTC-AAAATCGT-TG-
1 -TTTAATCTCGATCTCTTT-ATTCTCTGA-CTTATGA
* * * *
1608565 TTTAATCTCGAT-TGTTGTTATTTTATGACTCATGA
1 TTTAATCTCGATCT-CT-TTATTCTCTGACTTATGA
* * *
1608600 TTTAATTTCGATCTCTTTTTTCTCTGA-TTCGTGA
1 TTTAATCTCGATCTCTTTATTCTCTGACTT-ATGA
*
1608634 TTCAATCTCGATCTCTTTA
1 TTTAATCTCGATCTCTTTA
1608653 ATTTAAAATT
Statistics
Matches: 240, Mismatches: 57, Indels: 56
0.68 0.16 0.16
Matches are distributed among these distances:
32 5 0.02
33 54 0.22
34 122 0.51
35 53 0.22
36 6 0.03
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (34 bp):
TTTAATCTCGATCTCTTTATTCTCTGACTTATGA
Found at i:1608334 original size:102 final size:102
Alignment explanation
Indices: 1608225--1608687 Score: 653
Period size: 102 Copynumber: 4.5 Consensus size: 102
1608215 TCGACTCACA
* * * *
1608225 ATTTAATCACGATCTCTTTAATTCAAAATTGTAGTTTAATCTCGATTGTTATTATTTTTTGATTC
1 ATTTAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTC
* *
1608290 ACGGTTTAATCTCGATCTCTTTATTCTCTGACTT-ATG
66 ATGATTTAATCTCGATCTCTTTATTCTCTGA-TTCATG
* *
1608327 ATTTAATCTCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTATTATTTTTTGACTC
1 ATTTAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTC
1608392 ATGATTTAATCTCGATCTCTTTATTCTCTGATTCATG
66 ATGATTTAATCTCGATCTCTTTATTCTCTGATTCATG
*
1608429 ATTTAATCCCGATCTCTTTAATTCAAAATCATAGTTTAATCTCGATTGTTGTTATTTTTTGACTC
1 ATTTAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTC
* * *
1608494 GTGATTTAATCCCGATCTCTTTATTCTTTGATTC--G
66 ATGATTTAATCTCGATCTCTTTATTCTCTGATTCATG
* * *
1608529 CAGTTCAATCCCGATCTCTTTAATTCAAAATCGTTGTTTAATCTCGATTGTTGTTATTTTATGAC
1 -A-TTTAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGAC
* * *
1608594 TCATGATTTAATTTCGATCTCTTTTTTCTCTGATTCGTG
64 TCATGATTTAATCTCGATCTCTTTATTCTCTGATTCATG
* * * *** *
1608633 ATTCAATCTCGATCTCTTTAATTTAAAATTACAGTTTAATCTCGGTTGTTGTTAT
1 ATTTAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTAT
1608688 CCTCTAACTT
Statistics
Matches: 329, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
100 1 0.00
101 3 0.01
102 323 0.98
103 1 0.00
104 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (102 bp):
ATTTAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTCGATTGTTGTTATTTTTTGACTC
ATGATTTAATCTCGATCTCTTTATTCTCTGATTCATG
Found at i:1608813 original size:34 final size:34
Alignment explanation
Indices: 1608770--1608841 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
1608760 TACTTGCGAC
*
1608770 TTAATCCTAACCTCTTTATTCTCTGATTCACTGT
1 TTAATCCTAACCTCTTTATTCTCTGATTCACGGT
* *
1608804 TTAATCCTAATCTCTTTATTCTTTGATTCACGGT
1 TTAATCCTAACCTCTTTATTCTCTGATTCACGGT
1608838 TTAA
1 TTAA
1608842 CCCTGATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (34 bp):
TTAATCCTAACCTCTTTATTCTCTGATTCACGGT
Found at i:1609225 original size:12 final size:12
Alignment explanation
Indices: 1609202--1609278 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
1609192 TTTTTTAGTT
1609202 TAATATTAATAA
1 TAATATTAATAA
* *
1609214 TAATCTTGATAA
1 TAATATTAATAA
1609226 TAATATTAATAA
1 TAATATTAATAA
* *
1609238 TAACATTAAAAA
1 TAATATTAATAA
1609250 TTAATAATTAA-AA
1 -TAAT-ATTAATAA
*
1609263 TTAATAATAATAA
1 -TAATATTAATAA
1609276 TAA
1 TAA
1609279 AAAAAAGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
12 37 0.69
13 12 0.22
14 5 0.09
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:1609254 original size:19 final size:19
Alignment explanation
Indices: 1609230--1609280 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1609220 TGATAATAAT
*
1609230 ATTAATAATAACATTAAAA
1 ATTAATAATAAAATTAAAA
*
1609249 ATTAATAATTAAAATTAATA
1 ATTAATAA-TAAAATTAAAA
1609269 A-TAATAATAAAA
1 ATTAATAATAAAA
1609281 AAAAGAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 10 0.34
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAATAATAAAATTAAAA
Found at i:1609264 original size:13 final size:13
Alignment explanation
Indices: 1609246--1609270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1609236 AATAACATTA
1609246 AAAATTAATAATT
1 AAAATTAATAATT
1609259 AAAATTAATAAT
1 AAAATTAATAAT
1609271 AATAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTAATAATT
Done.