Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 120 of 160
Found at i:22441687 original size:22 final size:22
Alignment explanation
Indices: 22441662--22441715 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
22441652 GCCGAAATTA
*
22441662 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATATTTTAAAAT
22441684 ATAAAATATTATATTTTAAAAT
1 ATAAAATATTATATTTTAAAAT
22441706 ATAAATATAT
1 ATAAA-ATAT
22441716 AAATATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATATTATATTTTAAAAT
Found at i:22441736 original size:8 final size:8
Alignment explanation
Indices: 22441680--22441733 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
22441670 TTATTTTTTA
22441680 AAATATA-
1 AAATATAT
22441687 AAATAT-T
1 AAATATAT
* *
22441694 ATAT-TTT
1 AAATATAT
22441701 AAA-ATAT
1 AAATATAT
22441708 AAATATAT
1 AAATATAT
22441716 AAATATAT
1 AAATATAT
*
22441724 AATTATAT
1 AAATATAT
22441732 AA
1 AA
22441734 TTAAAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 1 0.03
7 17 0.44
8 21 0.54
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATATAT
Found at i:22445083 original size:11 final size:11
Alignment explanation
Indices: 22445063--22445105 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22445053 ATATATTATC
22445063 TTTTTAAATAA
1 TTTTTAAATAA
*
22445074 TTTTTTAATAA
1 TTTTTAAATAA
**
22445085 TTTAAAAATATA
1 TTTTTAAATA-A
22445097 TTTTTAAAT
1 TTTTTAAAT
22445106 TTAAAAATCT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTTAAATAA
Found at i:22452108 original size:12 final size:13
Alignment explanation
Indices: 22452076--22452113 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
22452066 TGGTGAGCCT
*
22452076 TAAAAACCAACTCC
1 TAAAAAGCAAC-CC
22452090 TAAAAAGCAACCC
1 TAAAAAGCAACCC
22452103 -AAAAAGCAACC
1 TAAAAAGCAACC
22452114 TAATGCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 2 0.09
14 10 0.43
ACGTcount: A:0.55, C:0.32, G:0.05, T:0.08
Consensus pattern (13 bp):
TAAAAAGCAACCC
Found at i:22453550 original size:18 final size:18
Alignment explanation
Indices: 22453527--22453592 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
22453517 CCTATCATAG
22453527 GTTTTCTTTTATCATTTT
1 GTTTTCTTTTATCATTTT
22453545 GTTTTCTGTTT-TCATTTT
1 GTTTTCT-TTTATCATTTT
*
22453563 -TATTTATTTTAT--TTTT
1 GT-TTTCTTTTATCATTTT
22453579 AGATTTTCTTTTAT
1 -G-TTTTCTTTTAT
22453593 TATTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.10
17 4 0.10
18 28 0.70
19 4 0.10
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.73
Consensus pattern (18 bp):
GTTTTCTTTTATCATTTT
Found at i:22455929 original size:30 final size:30
Alignment explanation
Indices: 22455893--22455952 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
22455883 TTATGGATGA
22455893 AAAGCCATTTTGAATGCAAGAAAATGCTTT
1 AAAGCCATTTTGAATGCAAGAAAATGCTTT
22455923 AAAGCCATTTTGAATGCAAGAAAATGCTTT
1 AAAGCCATTTTGAATGCAAGAAAATGCTTT
22455953 CTCTAAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (30 bp):
AAAGCCATTTTGAATGCAAGAAAATGCTTT
Found at i:22463515 original size:43 final size:43
Alignment explanation
Indices: 22463390--22463575 Score: 153
Period size: 43 Copynumber: 4.4 Consensus size: 43
22463380 TTAAGAAGCC
* * * * *
22463390 ATTTTAAAGTTGTTTAGCCTTTAAATAAATGAGTTCGTTTCAT
1 ATTTTAAAGTTGTTTAGCCTTTGAATAAAAGAGTACATTTCCT
* * *
22463433 ATTTTAAAGTTGTTTAACCTTTGAATATAAGAGCACATTTCCT
1 ATTTTAAAGTTGTTTAGCCTTTGAATAAAAGAGTACATTTCCT
* * * * * *
22463476 ATTTTAAAGTTGTTTAGCCTATGAATAGAGGAATGCATTTTC-
1 ATTTTAAAGTTGTTTAGCCTTTGAATAAAAGAGTACATTTCCT
* * * * ** *
22463518 ATTTTAAATTTGTTTGGCCTTT-ATTTAGAAGAACACA-TTCTT
1 ATTTTAAAGTTGTTTAGCCTTTGA-ATAAAAGAGTACATTTCCT
22463560 ATTTTAAAGTTGTTTA
1 ATTTTAAAGTTGTTTA
22463576 TCTTCTGTTT
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
41 3 0.03
42 42 0.37
43 69 0.61
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (43 bp):
ATTTTAAAGTTGTTTAGCCTTTGAATAAAAGAGTACATTTCCT
Found at i:22465587 original size:17 final size:17
Alignment explanation
Indices: 22465575--22465610 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
22465565 AATTAAAATT
22465575 AAATTTACTTTAAAAAA
1 AAATTTACTTTAAAAAA
22465592 AAATTTAC--TAAAAAA
1 AAATTTACTTTAAAAAA
22465607 AAAT
1 AAAT
22465611 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTTACTTTAAAAAA
Found at i:22468188 original size:12 final size:12
Alignment explanation
Indices: 22468171--22468197 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22468161 TTTTTTAAAT
22468171 TTAAATATTTTA
1 TTAAATATTTTA
22468183 TTAAATATTTTA
1 TTAAATATTTTA
22468195 TTA
1 TTA
22468198 TAATTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:22468222 original size:31 final size:30
Alignment explanation
Indices: 22468135--22468210 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
22468125 ATTAATGTAT
**
22468135 TTATAATTTAAATG-TCATATTACATATTTT-
1 TTATAATTTAAA-GATTTTATTA-ATATTTTA
*
22468165 TTA-AATTTAAATATTTTATTAAATATTTTA
1 TTATAATTTAAAGATTTTATT-AATATTTTA
22468195 TTATAATTTAAAGATT
1 TTATAATTTAAAGATT
22468211 ATTTATTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 20 0.53
30 7 0.18
31 11 0.29
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATAATTTAAAGATTTTATTAATATTTTA
Found at i:22468225 original size:12 final size:12
Alignment explanation
Indices: 22468208--22468236 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22468198 TAATTTAAAG
22468208 ATTATTTATTAT
1 ATTATTTATTAT
22468220 ATTATTTATTAT
1 ATTATTTATTAT
22468232 -TTATT
1 ATTATT
22468237 AGTTTGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTATTTATTAT
Found at i:22474771 original size:2 final size:2
Alignment explanation
Indices: 22474764--22474813 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
22474754 TGGCACTTGG
* * * *
22474764 AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT AA AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
22474806 AT TT AT AT
1 AT AT AT AT
22474814 TTCGATGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22476976 original size:1 final size:1
Alignment explanation
Indices: 22476972--22477003 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
22476962 CCGAAGTTCC
*
22476972 TTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22477004 CCGCCTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:22477727 original size:20 final size:20
Alignment explanation
Indices: 22477691--22477734 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22477681 TATTTATATA
* *
22477691 TATTTAATAAATAAAATTTT
1 TATTAAATAAATAAAATTAT
22477711 TATTAAAT-AATATAAATTAT
1 TATTAAATAAATA-AAATTAT
22477731 TATT
1 TATT
22477735 TTAGAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAAATAAATAAAATTAT
Found at i:22477778 original size:26 final size:24
Alignment explanation
Indices: 22477749--22477811 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 24
22477739 AGTAATTAAA
*
22477749 ATTAATATATTTTTATTAAAAAATAT
1 ATTAATATATATTTA-TAAAAAAT-T
22477775 ATTAATATATATTTATAAAAAATT
1 ATTAATATATATTTATAAAAAATT
22477799 ACTTAAATATATA
1 A-TT-AATATATA
22477812 AGATAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
24 2 0.06
25 10 0.29
26 22 0.65
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAATATATATTTATAAAAAATT
Found at i:22480332 original size:28 final size:28
Alignment explanation
Indices: 22480276--22480334 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
22480266 CTCGAGGATT
*
22480276 TTTTAAATTTTTTTGGATTTTTTTAAAC
1 TTTTAAATTTTTTTGGATTTTTCTAAAC
* *
22480304 TTTTGAATTTTTTTGGGA-TTTTCTGAAC
1 TTTTAAATTTTTTT-GGATTTTTCTAAAC
22480332 TTT
1 TTT
22480335 GGTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.63
Consensus pattern (28 bp):
TTTTAAATTTTTTTGGATTTTTCTAAAC
Found at i:22480363 original size:28 final size:29
Alignment explanation
Indices: 22480311--22480370 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
22480301 AACTTTTGAA
* *
22480311 TTTTTTTGGGATTTTCTGAACTTTGGTTT
1 TTTTTTTGAGATTTTCTGAACTTTGATTT
* *
22480340 TTTTTTTTAGATTTTCTGGA-TTTGATTT
1 TTTTTTTGAGATTTTCTGAACTTTGATTT
22480368 TTT
1 TTT
22480371 GACTTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.12, C:0.05, G:0.17, T:0.67
Consensus pattern (29 bp):
TTTTTTTGAGATTTTCTGAACTTTGATTT
Found at i:22481009 original size:84 final size:83
Alignment explanation
Indices: 22480752--22481105 Score: 252
Period size: 84 Copynumber: 4.3 Consensus size: 83
22480742 TGACACCCGA
* * * * * * * *
22480752 AAGTCTTACAAATTTTGATACTTAAATAGATTCAACTTGAAAGACTTATAAAT-TCTGCTCGAAT
1 AAGTTTTACAAATCTTGACACTAAAATAGATTCAACTTAAAAGACTTATGAATCTC-ACTCGAAA
* *
22480816 GA-TGTAGAGATTATGGTCG
65 GACT-TAGAGATTATGCTTG
* * * * * * * * * * *
22480835 ATGATCTTATAAATTTTGACACTAAAATAGA-TCTAGTCAGAAGACTTACGAATCTTACTCGGAA
1 AAG-TTTTACAAATCTTGACACTAAAATAGATTCAACTTAAAAGACTTATGAATCTCACTCGAAA
* ***
22480899 GACTTAAAGATTATGCCAA
65 GACTTAGAGATTATGCTTG
* *
22480918 AAGGTTTTACAAATCTTGACACTTAAATAGATTCAACTTAAAAGACTTATGAATCTCACTTGAAA
1 AA-GTTTTACAAATCTTGACACTAAAATAGATTCAACTTAAAAGACTTATGAATCTCACTCGAAA
* *
22480983 GATTTAGAGATTACGCTTGG
65 GACTTAGAGATTATGCTT-G
** * * * ** * *
22481003 AAGTTTTATC-AATCTCAACACTAAAATAGATTCAGCTTGAAAGACTTATGAATATTGCTTG-GA
1 AAGTTTTA-CAAATCTTGACACTAAAATAGATTCAACTTAAAAGACTTATGAATCTCACTCGAAA
*
22481066 G-CTTAGAGATTATGCTTT
65 GACTTAGAGATTATGCTTG
22481084 AAGGTTTTACAAATCTTGACAC
1 AA-GTTTTACAAATCTTGACAC
22481106 CAATGATTGT
Statistics
Matches: 209, Mismatches: 53, Indels: 19
0.74 0.19 0.07
Matches are distributed among these distances:
81 3 0.01
82 29 0.14
83 60 0.29
84 114 0.55
85 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (83 bp):
AAGTTTTACAAATCTTGACACTAAAATAGATTCAACTTAAAAGACTTATGAATCTCACTCGAAAG
ACTTAGAGATTATGCTTG
Found at i:22481033 original size:167 final size:166
Alignment explanation
Indices: 22480757--22481105 Score: 375
Period size: 167 Copynumber: 2.1 Consensus size: 166
22480747 CCCGAAAGTC
* * * * *
22480757 TTACAAATTTTGATACTTAAATAGATTCAACTTGAAAGACTTATAAATTCTGCTCGAATGATGTA
1 TTACAAATCTTGACACTTAAATAGATTCAACTTAAAAGACTTATAAATTCTACTCGAAAGATGTA
* * * **
22480822 GAGATTATGGTCGATGATCTTATAAATTTTGACACTAAAATAGA-TCTAG-TCAG-AAGACTTAC
66 GAGATTACGGTCGAAGATCTTATAAATCTCAACACTAAAATAGATTC-AGCT-AGAAAGACTTAC
*
22480884 GAATCTTACTCGGAAGACTTAAAGATTATGCCAAAAGGTT
129 GAATATTACTCGG-AG-CTTAAAGATTATGCCAAAAGGTT
* * *
22480924 TTACAAATCTTGACACTTAAATAGATTCAACTTAAAAGACTTATGAA-TCTCACTTGAAAGATTT
1 TTACAAATCTTGACACTTAAATAGATTCAACTTAAAAGACTTATAAATTCT-ACTCGAAAGATGT
* * * * * *
22480988 AGAGATTACGCTTGGAAG-TTTTATCAATCTCAACACTAAAATAGATTCAGCTTGAAAGACTTAT
65 AGAGATTACG-GTCGAAGATCTTATAAATCTCAACACTAAAATAGATTCAGCTAGAAAGACTTAC
* * * ***
22481052 GAATATTGCTTGGAGCTTAGAGATTATGCTTTAAGGTT
129 GAATATTACTCGGAGCTTAAAGATTATGCCAAAAGGTT
22481090 TTACAAATCTTGACAC
1 TTACAAATCTTGACAC
22481106 CAATGATTGT
Statistics
Matches: 151, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
166 38 0.25
167 88 0.58
168 25 0.17
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (166 bp):
TTACAAATCTTGACACTTAAATAGATTCAACTTAAAAGACTTATAAATTCTACTCGAAAGATGTA
GAGATTACGGTCGAAGATCTTATAAATCTCAACACTAAAATAGATTCAGCTAGAAAGACTTACGA
ATATTACTCGGAGCTTAAAGATTATGCCAAAAGGTT
Found at i:22482782 original size:16 final size:16
Alignment explanation
Indices: 22482763--22482810 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
22482753 TTTTACATCG
22482763 AAATGAATTTATACCA
1 AAATGAATTTATACCA
*
22482779 AAATGAA-TTACACCA
1 AAATGAATTTATACCA
** *
22482794 ACTTGAATTTGTACCA
1 AAATGAATTTATACCA
22482810 A
1 A
22482811 GGTGATTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (16 bp):
AAATGAATTTATACCA
Found at i:22482922 original size:15 final size:15
Alignment explanation
Indices: 22482902--22482958 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
22482892 TCCATTGTTG
22482902 AGGTGATTTACACAA
1 AGGTGATTTACACAA
22482917 AGGTGATTTACACAGA
1 AGGTGATTTACACA-A
*
22482933 A-GTGATTTACACTA
1 AGGTGATTTACACAA
*
22482947 AGATGATTTACA
1 AGGTGATTTACA
22482959 TTAAGGCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 2 0.05
15 34 0.89
16 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (15 bp):
AGGTGATTTACACAA
Found at i:22483586 original size:30 final size:30
Alignment explanation
Indices: 22483546--22483620 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
22483536 TTTGCCAAAC
* * **
22483546 TAAGCTTTTATAAAGGTATTTTGGCCGAA-T
1 TAAGCCTTTATAAAGGTATATTCACC-AAGT
*
22483576 TAAGCCTTTATGAAGGTATATTCACCAAGT
1 TAAGCCTTTATAAAGGTATATTCACCAAGT
*
22483606 TAAGACTTTATAAAG
1 TAAGCCTTTATAAAG
22483621 ACGTTACTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (30 bp):
TAAGCCTTTATAAAGGTATATTCACCAAGT
Found at i:22484699 original size:20 final size:19
Alignment explanation
Indices: 22484672--22484730 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
22484662 CCAATGTCTC
*
22484672 AAAGTCAACTCTAGTCAACT
1 AAAGTCAACT-TAGTCAAAT
*
22484692 ATAGTCAAACTTAGTCAAAT
1 AAAGTC-AACTTAGTCAAAT
*
22484712 AAAGTCAAAATTAGTCAAA
1 AAAGTC-AACTTAGTCAAA
22484731 CTTGGTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 30 0.88
21 4 0.12
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (19 bp):
AAAGTCAACTTAGTCAAAT
Found at i:22484710 original size:10 final size:11
Alignment explanation
Indices: 22484674--22484732 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 11
22484664 AATGTCTCAA
*
22484674 AGTC-AACTCT
1 AGTCAAACTAT
22484684 AGTC-AACTAT
1 AGTCAAACTAT
22484694 AGTCAAACT-T
1 AGTCAAACTAT
*
22484704 AGTCAAA-TAA
1 AGTCAAACTAT
*
22484714 AGTCAAAAT-T
1 AGTCAAACTAT
22484724 AGTCAAACT
1 AGTCAAACT
22484733 TGGTCAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 1 0.02
10 36 0.86
11 5 0.12
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (11 bp):
AGTCAAACTAT
Found at i:22484738 original size:10 final size:10
Alignment explanation
Indices: 22484715--22484754 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
22484705 GTCAAATAAA
*
22484715 GTCAAAATTA
1 GTCAAAATTG
*
22484725 GTCAAACTTG
1 GTCAAAATTG
22484735 GTCAAAATTG
1 GTCAAAATTG
*
22484745 ATCAAAATTG
1 GTCAAAATTG
22484755 ACAAAAACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (10 bp):
GTCAAAATTG
Found at i:22485119 original size:18 final size:17
Alignment explanation
Indices: 22485096--22485130 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22485086 GCTTTAGATC
*
22485096 ATGATTTTATAATATTTT
1 ATGATTTT-TAAAATTTT
22485114 ATGATTTTTAAAATTTT
1 ATGATTTTTAAAATTTT
22485131 GAAAACCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
ATGATTTTTAAAATTTT
Found at i:22486773 original size:14 final size:14
Alignment explanation
Indices: 22486756--22486800 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
22486746 AAAAAAAAAA
22486756 AAAATTAAAACCCT
1 AAAATTAAAACCCT
**
22486770 AAAATTAGGACCCT
1 AAAATTAAAACCCT
* *
22486784 AAACTTTAAACCCT
1 AAAATTAAAACCCT
22486798 AAA
1 AAA
22486801 TCTCCCATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.22
Consensus pattern (14 bp):
AAAATTAAAACCCT
Found at i:22486836 original size:14 final size:13
Alignment explanation
Indices: 22486809--22486902 Score: 73
Period size: 13 Copynumber: 6.7 Consensus size: 13
22486799 AATCTCCCAT
*
22486809 TAAATCCTAAATC
1 TAAACCCTAAATC
*
22486822 TCAAACCCCAAATC
1 T-AAACCCTAAATC
22486836 TAAACCCTAAACTC
1 TAAACCCTAAA-TC
22486850 TAAAACCCTAAATC
1 T-AAACCCTAAATC
22486864 TAGCCTAACACC-AAATC
1 TA----AAC-CCTAAATC
* *
22486881 AAAACCCTAAACC
1 TAAACCCTAAATC
22486894 TAAACCCTA
1 TAAACCCTA
22486903 GCCTTAAACC
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.03
13 26 0.39
14 17 0.26
15 10 0.15
17 9 0.14
18 2 0.03
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (13 bp):
TAAACCCTAAATC
Found at i:22486900 original size:13 final size:13
Alignment explanation
Indices: 22486882--22486973 Score: 64
Period size: 13 Copynumber: 6.9 Consensus size: 13
22486872 CACCAAATCA
22486882 AAACCCTAAACCT
1 AAACCCTAAACCT
*
22486895 AAACCCT-AGCCTT
1 AAACCCTAAACC-T
*
22486908 AAACCCTAAAACT
1 AAACCCTAAACCT
* *
22486921 TAACCCT-AGCCTT
1 AAACCCTAAACC-T
*
22486934 AAACCTTAAAACCT
1 AAACCCT-AAACCT
*
22486948 -AACCTTAAACGCT
1 AAACCCTAAAC-CT
22486961 AAAACCCTAAACC
1 -AAACCCTAAACC
22486974 CTAACTTAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
12 9 0.15
13 36 0.59
14 4 0.07
15 12 0.20
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:22486902 original size:7 final size:7
Alignment explanation
Indices: 22486882--22486977 Score: 58
Period size: 7 Copynumber: 14.3 Consensus size: 7
22486872 CACCAAATCA
22486882 AAACCCT
1 AAACCCT
22486889 AAA-CCT
1 AAACCCT
22486895 AAACCCT
1 AAACCCT
* *
22486902 -AGCCTT
1 AAACCCT
22486908 AAACCCT
1 AAACCCT
*
22486915 AAA-ACT
1 AAACCCT
*
22486921 TAACCCT
1 AAACCCT
* *
22486928 -AGCCTT
1 AAACCCT
*
22486934 AAACCTT
1 AAACCCT
*
22486941 AAAACCT
1 AAACCCT
*
22486948 -AACCTT
1 AAACCCT
*
22486954 AAACGCT
1 AAACCCT
22486961 AAAACCCT
1 -AAACCCT
22486969 AAACCCT
1 AAACCCT
22486976 AA
1 AA
22486978 CTTAGCCCCT
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
6 22 0.33
7 38 0.58
8 6 0.09
ACGTcount: A:0.43, C:0.34, G:0.03, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:22486950 original size:26 final size:26
Alignment explanation
Indices: 22486882--22486978 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
22486872 CACCAAATCA
22486882 AAACCCT-AAACCTAAACCCTAGCCTT
1 AAACCCTAAAACCT-AACCCTAGCCTT
*
22486908 AAACCCTAAAACTTAACCCTAGCCTT
1 AAACCCTAAAACCTAACCCTAGCCTT
* * * *
22486934 AAACCTTAAAACCTAACCTTAAACGCTA
1 AAACCCTAAAACCTAACCCT-AGC-CTT
*
22486962 AAACCCTAAACCCTAAC
1 AAACCCTAAAACCTAAC
22486979 TTAGCCCCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 36 0.60
27 7 0.12
28 17 0.28
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (26 bp):
AAACCCTAAAACCTAACCCTAGCCTT
Found at i:22486953 original size:20 final size:20
Alignment explanation
Indices: 22486925--22486966 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22486915 AAAACTTAAC
*
22486925 CCTAGCCTTAAAC-CTTAAAA
1 CCTAACCTTAAACGC-TAAAA
22486945 CCTAACCTTAAACGCTAAAA
1 CCTAACCTTAAACGCTAAAA
22486965 CC
1 CC
22486967 CTAAACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.21
Consensus pattern (20 bp):
CCTAACCTTAAACGCTAAAA
Found at i:22487079 original size:18 final size:17
Alignment explanation
Indices: 22487036--22487107 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
22487026 TTTGCATTTT
22487036 ATTTTATTATTA-CATGC
1 ATTTTA-TATTATCATGC
*
22487053 ATTTTATATTATCATGT
1 ATTTTATATTATCATGC
* *
22487070 ATTCTTATATTGTCATTC
1 ATT-TTATATTATCATGC
* * *
22487088 ATATTATATTTTTATGC
1 ATTTTATATTATCATGC
22487105 ATT
1 ATT
22487108 CATCATATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
16 5 0.11
17 26 0.59
18 13 0.30
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTTTATATTATCATGC
Found at i:22487450 original size:15 final size:15
Alignment explanation
Indices: 22487427--22487458 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22487417 TTGTTTTAAA
22487427 AAAACAAAAAAAAAG
1 AAAACAAAAAAAAAG
*
22487442 AAAAGAAAAAAAAAG
1 AAAACAAAAAAAAAG
22487457 AA
1 AA
22487459 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAAAAG
Found at i:22488036 original size:24 final size:24
Alignment explanation
Indices: 22487999--22488045 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
22487989 AAATGAGAAT
22487999 AAAAGAGAATAAAATGGAAAAATA
1 AAAAGAGAATAAAATGGAAAAATA
22488023 AAAAGA-AATGAAAATGGAAAAAT
1 AAAAGAGAAT-AAAATGGAAAAAT
22488046 TTGGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (24 bp):
AAAAGAGAATAAAATGGAAAAATA
Found at i:22488104 original size:25 final size:25
Alignment explanation
Indices: 22488071--22488124 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
22488061 TGTGTTTTAT
* *
22488071 ATTTTATGCATATTTTAATCATGTC
1 ATTTCATGCAAATTTTAATCATGTC
*
22488096 ATTTCATGCAAATTTTAATTATGTC
1 ATTTCATGCAAATTTTAATCATGTC
22488121 ATTT
1 ATTT
22488125 ATTATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (25 bp):
ATTTCATGCAAATTTTAATCATGTC
Found at i:22489229 original size:37 final size:37
Alignment explanation
Indices: 22489188--22489297 Score: 120
Period size: 37 Copynumber: 3.0 Consensus size: 37
22489178 CTCACCCACA
**
22489188 TTGATAGATAGTACCTAT-ATTTTGTTTCATGCACATC
1 TTGATAGATAGTA-CTATCATTTCATTTCATGCACATC
22489225 TTGATAGATAGTA-TATGCATTTCATTTCATGCACATC
1 TTGATAGATAGTACTAT-CATTTCATTTCATGCACATC
* *
22489262 TCGATAGATAGTAC-ATGCA-TTCTATTTCATGTACAT
1 TTGATAGATAGTACTAT-CATTTC-ATTTCATGCACAT
22489298 GTTAACAGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
35 3 0.05
36 3 0.05
37 59 0.91
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (37 bp):
TTGATAGATAGTACTATCATTTCATTTCATGCACATC
Found at i:22489290 original size:74 final size:73
Alignment explanation
Indices: 22489141--22489297 Score: 163
Period size: 74 Copynumber: 2.1 Consensus size: 73
22489131 GTATCTTATC
* *
22489141 TCATGCACATCATAATAGAATAATACATGCATTCCATCTCACCCACATTGATAGATAGTACCTAT
1 TCATGCACATCATAATAGAATAATACATGCATTCCATCTCACCCACATTGATAGATAGTACATAC
* *
22489206 ATTTTGTT
66 ATTCTATT
* * * * * * **
22489214 TCATGCACATCTTGATAG-ATAGTATATGCATTTCATTTCATGCACATCTCGATAGATAGTACAT
1 TCATGCACATCATAATAGAATAATACATGCATTCCATCTCACCCACAT-T-GATAGATAGTACAT
*
22489278 GCATTCTATT
64 ACATTCTATT
*
22489288 TCATGTACAT
1 TCATGCACAT
22489298 GTTAACAGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
72 23 0.34
73 17 0.25
74 28 0.41
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (73 bp):
TCATGCACATCATAATAGAATAATACATGCATTCCATCTCACCCACATTGATAGATAGTACATAC
ATTCTATT
Found at i:22492152 original size:26 final size:25
Alignment explanation
Indices: 22492120--22492204 Score: 74
Period size: 22 Copynumber: 3.5 Consensus size: 25
22492110 AAAAGGTGCC
*
22492120 TTGAAAATGAAAATAAAAAAAATGT
1 TTGAAAAAGAAAATAAAAAAAATGT
22492145 TTGAAAAAAAGAAAA-AAAAATAAA-GT
1 TTG--AAAAAGAAAATAAAAA-AAATGT
* *
22492171 TCG--AAA-AAAATAAAAAAAGTGT
1 TTGAAAAAGAAAATAAAAAAAATGT
22492193 TTGAAAAA-AAAA
1 TTGAAAAAGAAAA
22492205 GATAGAAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
21 6 0.12
22 12 0.24
24 7 0.14
25 3 0.06
26 9 0.18
27 12 0.24
ACGTcount: A:0.68, C:0.01, G:0.12, T:0.19
Consensus pattern (25 bp):
TTGAAAAAGAAAATAAAAAAAATGT
Found at i:22492159 original size:22 final size:22
Alignment explanation
Indices: 22492129--22492202 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 22
22492119 CTTGAAAATG
22492129 AAAATAAAAAAAATGTTTGAAA
1 AAAATAAAAAAAATGTTTGAAA
* *
22492151 AAAAGAAAAAAAAATAAAGTTCGAAA
1 AAAA-TAAAAAAAAT---GTTTGAAA
*
22492177 AAAATAAAAAAAGTGTTTGAAA
1 AAAATAAAAAAAATGTTTGAAA
22492199 AAAA
1 AAAA
22492203 AAGATAGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 15 0.35
23 9 0.21
25 8 0.19
26 11 0.26
ACGTcount: A:0.70, C:0.01, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAATAAAAAAAATGTTTGAAA
Found at i:22493401 original size:19 final size:17
Alignment explanation
Indices: 22493360--22493396 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22493350 ATGAAGGAAA
* *
22493360 TAAGAACAAAAAATGGG
1 TAAGAACAAAAAAAGAG
22493377 TAAGAACAAAAAAAGAG
1 TAAGAACAAAAAAAGAG
22493394 TAA
1 TAA
22493397 AAGAAGGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.05, G:0.19, T:0.11
Consensus pattern (17 bp):
TAAGAACAAAAAAAGAG
Found at i:22493756 original size:1 final size:1
Alignment explanation
Indices: 22493750--22493806 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
22493740 ATGTAATAGT
* * * * * * *
22493750 AAAAAAAAATAAGAGAAAGAAAAAAAAAAAAAAAAAACAAAAAAATATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22493807 GATGAATGTG
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.02, G:0.05, T:0.05
Consensus pattern (1 bp):
A
Found at i:22493791 original size:19 final size:19
Alignment explanation
Indices: 22493750--22493806 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
22493740 ATGTAATAGT
* * * *
22493750 AAAAAAAAATAAGAGAAAG
1 AAAAAAAAAAAAAAAAAAC
22493769 AAAAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAC
22493788 AAAAAAATATAAAAAAAAA
1 AAAAAAA-A-AAAAAAAAA
22493807 GATGAATGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 22 0.69
20 1 0.03
21 9 0.28
ACGTcount: A:0.88, C:0.02, G:0.05, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAC
Found at i:22494575 original size:7 final size:7
Alignment explanation
Indices: 22494563--22494595 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
22494553 AAGTCTAAAA
22494563 TGCATGT
1 TGCATGT
22494570 TGCATGT
1 TGCATGT
22494577 TGCATGT
1 TGCATGT
*
22494584 TACATGT
1 TGCATGT
22494591 TGCAT
1 TGCAT
22494596 ATTGTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.42
Consensus pattern (7 bp):
TGCATGT
Found at i:22494591 original size:21 final size:21
Alignment explanation
Indices: 22494565--22494604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22494555 GTCTAAAATG
*
22494565 CATGTTGCATGTTGCATGTTA
1 CATGTTGCATATTGCATGTTA
*
22494586 CATGTTGCATATTGTATGT
1 CATGTTGCATATTGCATGT
22494605 ACTTCTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (21 bp):
CATGTTGCATATTGCATGTTA
Found at i:22494985 original size:42 final size:42
Alignment explanation
Indices: 22494938--22495147 Score: 224
Period size: 42 Copynumber: 5.0 Consensus size: 42
22494928 CTTGTGAATA
* *
22494938 TTCAAACTATGAATCGTTTACTCTATTGTAAATCTAGAATCT
1 TTCAAACTATGAATCATTTACTCTATTGTGAATCTAGAATCT
* * *
22494980 TTCAAACTGTGAATCATTTACTCTATTGTGAATTTAGAGTCT
1 TTCAAACTATGAATCATTTACTCTATTGTGAATCTAGAATCT
* * * * *
22495022 TTCAAACTATGAATCTTTTACCCTTTTATGAATCCA-AAGTCT
1 TTCAAACTATGAATCATTTACTCTATTGTGAATCTAGAA-TCT
* * *
22495064 TTTAAACTATGAATCATTTACTCTTTTGTGAATTTAGAATTCT
1 TTCAAACTATGAATCATTTACTCTATTGTGAATCTAGAA-TCT
* * * * * *
22495107 TCCAAATTGTCAATCATTTACTCTATTGTAAATCCAGAATC
1 TTCAAACTATGAATCATTTACTCTATTGTGAATCTAGAATC
22495148 ATCTAAGCTA
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 101 0.74
43 35 0.26
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (42 bp):
TTCAAACTATGAATCATTTACTCTATTGTGAATCTAGAATCT
Found at i:22495183 original size:127 final size:125
Alignment explanation
Indices: 22494941--22495192 Score: 292
Period size: 127 Copynumber: 2.0 Consensus size: 125
22494931 GTGAATATTC
* * *
22494941 AAACTATGAATCGTTTACTCTATTGTAAATCTAGAATCTTTCAAACTGTGAATCATTTACTCTAT
1 AAACTATGAATCATTTACTCTATTGTAAATCTAGAATCTTCCAAACTGTCAATCATTTACTCTAT
* ** * * *
22495006 TGTGAATTTAGAGTCTTTCAAACTATGAATCTTTTACCCTTTTATGAATCCAAAGTCTTTT
66 TGTAAATCCAGAATCTCTCAAACTATGAATCTTTTACCCTTTTATCAATCCAAAGT-TTTT
* * * *
22495067 AAACTATGAATCATTTACTCTTTTGTGAATTTAGAATTCTTCCAAATTGTCAATCATTTACTCTA
1 AAACTATGAATCATTTACTCTATTGTAAATCTAGAA-TCTTCCAAACTGTCAATCATTTACTCTA
* * ** *
22495132 TTGTAAATCCAGAATCATCT-AAGCTATGAAT-TGTTTTCTTTTTTGTCAATCCAAAGTTTTT
65 TTGTAAATCCAGAATC-TCTCAAACTATGAATCT-TTTACCCTTTTATCAATCCAAAGTTTTT
22495193 CCAACAATAA
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
126 37 0.35
127 66 0.63
128 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (125 bp):
AAACTATGAATCATTTACTCTATTGTAAATCTAGAATCTTCCAAACTGTCAATCATTTACTCTAT
TGTAAATCCAGAATCTCTCAAACTATGAATCTTTTACCCTTTTATCAATCCAAAGTTTTT
Found at i:22495246 original size:41 final size:41
Alignment explanation
Indices: 22495179--22495271 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
22495169 CTTTTTTGTC
* *
22495179 AATCCAAAGTTTTTCCAACAATAAATTGTTACCTCTATTATG
1 AATCCAGAG-TTTTCCAACAATAAATTATTACCTCTATTATG
* * * * * *
22495221 AATCTAGAGTTTTCTAACAGTAAATTATTGCCTTTATTGTG
1 AATCCAGAGTTTTCCAACAATAAATTATTACCTCTATTATG
22495262 AATCCAGAGT
1 AATCCAGAGT
22495272 CTACCAACTA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 35 0.83
42 7 0.17
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (41 bp):
AATCCAGAGTTTTCCAACAATAAATTATTACCTCTATTATG
Found at i:22495402 original size:20 final size:20
Alignment explanation
Indices: 22495358--22495401 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
22495348 CTTTGAAGAG
* *
22495358 TTTTGGTATGAATCCTAGCC
1 TTTTGGTATGAATCCGAACC
22495378 TTTTGGTATGAATCTCGAACC
1 TTTTGGTATGAATC-CGAACC
22495399 TTT
1 TTT
22495402 GAAGAATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTTGGTATGAATCCGAACC
Found at i:22495420 original size:50 final size:50
Alignment explanation
Indices: 22495328--22495472 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 50
22495318 TAAAGAAGCA
* * ** * *
22495328 TTTTGGTCTGAATCTCGAACCTTTGAAGAGTTTTGGTATGAATCCTAGCC
1 TTTTGGTATGAATCTCGAACCTTTGAAGAATCCTAGTGTGAATCCTAGCC
*
22495378 TTTTGGTATGAATCTCGAACCTTTGAAGAATCCTAGTGTGAATCTTAGCC
1 TTTTGGTATGAATCTCGAACCTTTGAAGAATCCTAGTGTGAATCCTAGCC
* * * * * *
22495428 TTTTAGTGTGACTATCAAACCTTTGAAAAATCCTAGTGTGAATCC
1 TTTTGGTATGAATCTCGAACCTTTGAAGAATCCTAGTGTGAATCC
22495473 CAACTTTTTG
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (50 bp):
TTTTGGTATGAATCTCGAACCTTTGAAGAATCCTAGTGTGAATCCTAGCC
Found at i:22495797 original size:10 final size:10
Alignment explanation
Indices: 22495784--22495816 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22495774 AAAAAAGTGA
22495784 AAACAAAAAC
1 AAACAAAAAC
22495794 AAAC-AAAAC
1 AAACAAAAAC
22495803 AAAACAAAAAC
1 -AAACAAAAAC
22495814 AAA
1 AAA
22495817 TCCTCCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.24
10 11 0.52
11 5 0.24
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (10 bp):
AAACAAAAAC
Found at i:22498108 original size:3 final size:3
Alignment explanation
Indices: 22498093--22498147 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
22498083 ATCGTATTTA
* * *
22498093 ATT ATT TTT ATT ATT ATC A-T ATT ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22498140 ATT -TT ATT
1 ATT ATT ATT
22498148 TTTCTTTGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 3 0.07
3 41 0.93
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22499062 original size:39 final size:39
Alignment explanation
Indices: 22498987--22499076 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 39
22498977 GTTTTTTTTA
* **
22498987 TTTTATTTTTTGATTTTATTTTATTTTTACTCATTTTATT
1 TTTTATTTTTT-ATTTGATTTTATTTTTACAAATTTTATT
*
22499027 TTTTATTTTTT-TTTGATTTTATTTTTAAGAAATTTTATT
1 TTTTATTTTTTATTTGATTTTATTTTT-ACAAATTTTATT
22499066 TCTTCTATTTT
1 T-TT-TATTTT
22499077 ATTTCTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 14 0.33
39 10 0.23
40 13 0.30
41 6 0.14
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (39 bp):
TTTTATTTTTTATTTGATTTTATTTTTACAAATTTTATT
Found at i:22499156 original size:19 final size:18
Alignment explanation
Indices: 22499134--22499173 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
22499124 ATGATTCTAT
22499134 AAAAAATCATTTTCAAATA
1 AAAAAATC-TTTTCAAATA
22499153 AAAAAATCTTTTCAAATA
1 AAAAAATCTTTTCAAATA
22499171 AAA
1 AAA
22499174 TTTTCAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATCTTTTCAAATA
Found at i:22503504 original size:9 final size:9
Alignment explanation
Indices: 22503491--22503599 Score: 82
Period size: 9 Copynumber: 12.1 Consensus size: 9
22503481 AAAAATGTAC
22503491 AAAAAAAGAG
1 AAAAAAA-AG
*
22503501 AAAAAAAAT
1 AAAAAAAAG
*
22503510 AAAAAAAAT
1 AAAAAAAAG
22503519 AAAAAAAAG
1 AAAAAAAAG
22503528 AAAAAAAA-
1 AAAAAAAAG
*
22503536 ATAAAAAAAT
1 A-AAAAAAAG
*
22503546 AAAAAACAAC
1 AAAAAA-AAG
*
22503556 AAATAAAA-
1 AAAAAAAAG
*
22503564 AAATAAAA-
1 AAAAAAAAG
*
22503572 AAAAGAAAG
1 AAAAAAAAG
*
22503581 -AAAAAGAG
1 AAAAAAAAG
22503589 ACAAAAAAAG
1 A-AAAAAAAG
22503599 A
1 A
22503600 TAAAGGAAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
8 21 0.25
9 40 0.48
10 23 0.27
ACGTcount: A:0.84, C:0.03, G:0.07, T:0.06
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:22503504 original size:10 final size:9
Alignment explanation
Indices: 22503491--22503585 Score: 84
Period size: 9 Copynumber: 9.9 Consensus size: 9
22503481 AAAAATGTAC
*
22503491 AAAAAAAGAG
1 AAAAAAA-AT
22503501 AAAAAAAAT
1 AAAAAAAAT
22503510 AAAAAAAAT
1 AAAAAAAAT
*
22503519 AAAAAAAAG
1 AAAAAAAAT
22503528 AAAAAAAA-
1 AAAAAAAAT
22503536 ATAAAAAAAT
1 A-AAAAAAAT
*
22503546 AAAAAACAACAA
1 -AAAAA-AA-AT
22503558 ATAAAAAAAT
1 A-AAAAAAAT
*
22503568 AAAAAAAAG
1 AAAAAAAAT
22503577 AAAGAAAAA
1 AAA-AAAAA
22503586 GAGACAAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
8 1 0.01
9 43 0.59
10 18 0.25
11 6 0.08
12 5 0.07
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.06
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:22503513 original size:28 final size:26
Alignment explanation
Indices: 22503491--22503585 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 26
22503481 AAAAATGTAC
22503491 AAAAAAAGAGAAAAAAAATAAAAAAAATA
1 AAAAAAAGA-AAAAAAAAT--AAAAAATA
22503520 AAAAAAAGAAAAAAAAATAAAAAA-A
1 AAAAAAAGAAAAAAAAATAAAAAATA
* * * *
22503545 TAAAAAA-CAACAAATA-AAAAAATA
1 AAAAAAAGAAAAAAAAATAAAAAATA
*
22503569 AAAAAAAGAAAGAAAAA
1 AAAAAAAGAAAAAAAAA
22503586 GAGACAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.11
24 13 0.23
25 13 0.23
26 6 0.11
28 9 0.16
29 9 0.16
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.06
Consensus pattern (26 bp):
AAAAAAAGAAAAAAAAATAAAAAATA
Found at i:22503522 original size:27 final size:27
Alignment explanation
Indices: 22503491--22503597 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 27
22503481 AAAAATGTAC
*
22503491 AAAAAAAGAGAAAAAAAATAAAAAAAA
1 AAAAAAAAAGAAAAAAAATAAAAAAAA
*
22503518 TAAAAAAAAGAAAAAAAAATAAAAAAATA
1 AAAAAAAAAG-AAAAAAAATAAAAAAA-A
22503547 AAAAACAACAA-ATAAAAAAATAAAAAAAA
1 AAAAA-AA-AAGA-AAAAAAATAAAAAAAA
22503576 GAAAGAAAAAGAGACAAAAAAA
1 -AAA-AAAAA-AGA-AAAAAAA
22503598 GATAAAGGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
27 8 0.12
28 16 0.24
29 8 0.12
30 23 0.34
31 12 0.18
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.06
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAATAAAAAAAA
Found at i:22503597 original size:1 final size:1
Alignment explanation
Indices: 22503491--22503585 Score: 73
Period size: 1 Copynumber: 95.0 Consensus size: 1
22503481 AAAAATGTAC
* * * * * * * * *
22503491 AAAAAAAGAGAAAAAAAATAAAAAAAATAAAAAAAAGAAAAAAAAATAAAAAAATAAAAAACAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
22503556 AAATAAAAAAATAAAAAAAAGAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22503586 GAGACAAAAA
Statistics
Matches: 68, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.06
Consensus pattern (1 bp):
A
Found at i:22504799 original size:69 final size:69
Alignment explanation
Indices: 22504652--22504799 Score: 208
Period size: 69 Copynumber: 2.1 Consensus size: 69
22504642 TCTTGCATCT
* *** * *
22504652 TTGTGAATCTAGAACCTTTGAGAAACTTGGAGTCTTTTGAATCTTTCTTTCTTGTGAACCTGAAA
1 TTGTGAATCTAGAACCTTTGAGAAACTTAGAGTCTTGCAAATCTTTCTTTCTTATGAACCTAAAA
22504717 ATCC
66 ATCC
**
22504721 TTGCAAATCTAGAACCTTTGCA-AAACTTAGAGTCTTGCAAATCTTTCTTTCTTATGAACCTAAA
1 TTGTGAATCTAGAACCTTTG-AGAAACTTAGAGTCTTGCAAATCTTTCTTTCTTATGAACCTAAA
22504785 AATCC
65 AATCC
22504790 TTGTGAATCT
1 TTGTGAATCT
22504800 TGCATATTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 67 0.99
70 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (69 bp):
TTGTGAATCTAGAACCTTTGAGAAACTTAGAGTCTTGCAAATCTTTCTTTCTTATGAACCTAAAA
ATCC
Found at i:22504848 original size:86 final size:86
Alignment explanation
Indices: 22504721--22504973 Score: 305
Period size: 86 Copynumber: 2.9 Consensus size: 86
22504711 CTGAAAATCC
* * * *
22504721 TTGCAAATCTAGAACCTTTGCAAAACTTAGAGTCTTGCAAATCTTTCTTTCTTATGAACCTAAAA
1 TTGCAAATCTAGAACCTTTACAAAACTTAGAGTTTTACAAATCTTTCTTTCTTGTGAACCTAAAA
**
22504786 ATCCTTGTGAATCTTGCATAT
66 ATCCTTGCAAATCTTGCATAT
* * * *
22504807 TTG-AGAATCTAGAACCTCTACAAAACTTGGAGTTTTACAAATCTTTCTTTCTTGTGAACTTGAA
1 TTGCA-AATCTAGAACCTTTACAAAACTTAGAGTTTTACAAATCTTTCTTTCTTGTGAACCTAAA
*
22504871 AATCCTTGCAAATCTTGCATCT
65 AATCCTTGCAAATCTTGCATAT
* * * *
22504893 TTGCAAATCTAGAACCTTTACGAAACTCAGAGTCTTGA-AAATCTTTCTTTCTTGCGAACCTGAA
1 TTGCAAATCTAGAACCTTTACAAAACTTAGAGT-TTTACAAATCTTTCTTTCTTGTGAACCT-AA
*
22504957 AAAGT-CTTGAAAATCTT
64 AAA-TCCTTGCAAATCTT
22504974 TCTTTCTTGC
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 1 0.01
86 121 0.85
87 19 0.13
88 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (86 bp):
TTGCAAATCTAGAACCTTTACAAAACTTAGAGTTTTACAAATCTTTCTTTCTTGTGAACCTAAAA
ATCCTTGCAAATCTTGCATAT
Found at i:22504964 original size:36 final size:36
Alignment explanation
Indices: 22504923--22504994 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
22504913 CGAAACTCAG
22504923 AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAA
1 AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAA
22504959 AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAA
1 AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAA
22504995 TCCTTGCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (36 bp):
AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAA
Found at i:22504993 original size:122 final size:121
Alignment explanation
Indices: 22504845--22505094 Score: 331
Period size: 122 Copynumber: 2.1 Consensus size: 121
22504835 GGAGTTTTAC
* * * *
22504845 AAATCTTTCTTTCTTGTGAACTTGAAAATCCTTGCAAATCTTGCATCTTTGCAAATCTAGAACCT
1 AAATCTTTCTTTCTTGCGAACCTGAAAATCCTTGCAAATCTTGCATCTTTACAAATCTAAAACCT
*
22504910 TTACGAAACTCAGAGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAAAGT-CTTGA
66 TTACGAAACTCAGAGTCTTGAAAATCTTTCTTTCTTACGAACCT-AAAAA-TCCTTGA
* **
22504967 AAATCTTTCTTTCTTGCGAACCTGAAAATCCTTGCAAATCTTGTATCTTTATGAATCTAAAACCT
1 AAATCTTTCTTTCTTGCGAACCTGAAAATCCTTGCAAATCTTGCATCTTTACAAATCTAAAACCT
* * ** ** * *
22505032 TTATGAAATTTGGAGTCTTGTGAATCTTTCTTTCTTATGAACCTAAAAATCCTTGC
66 TTACGAAACTCAGAGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGA
22505088 AAATCTT
1 AAATCTT
22505095 GTATCTTTGC
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
120 1 0.01
121 16 0.14
122 94 0.85
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (121 bp):
AAATCTTTCTTTCTTGCGAACCTGAAAATCCTTGCAAATCTTGCATCTTTACAAATCTAAAACCT
TTACGAAACTCAGAGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGA
Found at i:22504997 original size:208 final size:208
Alignment explanation
Indices: 22504751--22505218 Score: 548
Period size: 208 Copynumber: 2.3 Consensus size: 208
22504741 CAAAACTTAG
* * **
22504751 AGTCTTGCAAATCTTTCTTTCTTATGAACCTAAAAATCCTTGTGAATCTTGCATATTTGA-GAAT
1 AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGCATATTT-ATGAAT
* * * * *
22504815 CTAGAACCTCTACAAAACTTGGAGTTTTACAAATCTTTCTTTCTTGTGAACTTGAAAATCCTTGC
65 CTAAAACCTCTACAAAACTTGGAGTCTTACAAATCTTTCTTTCTTATGAACCTAAAAATCCTTGC
*
22504880 AAATCTTGCATCTTTGCAAATCTAGAACCTTTACGAAACTCAGAGTCTTGAAAATCTTTCTTTCT
130 AAATCTTGCATCTTTGCAAATCTAGAACCTTTACGAAACTCAAAGTCTTGAAAATCTTTCTTTCT
22504945 TGCGAACCTGAAAA
195 TGCGAACCTGAAAA
* * * *
22504959 AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAATCCTTGCAAATCTTGTATCTTTATGAATC
1 AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGCATATTTATGAATC
* ** * ***
22505024 TAAAACCTTTATGAAATTTGGAGTCTTGTGAATCTTTCTTTCTTATGAACCTAAAAATCCTTGCA
66 TAAAACCTCTACAAAACTTGGAGTCTTACAAATCTTTCTTTCTTATGAACCTAAAAATCCTTGCA
* * * * **** *
22505089 AATCTTGTATCTTTGCAAATCTAGAACTTTTACGAAACTTAAAGTCTTGCAAATCTGAAAATCCT
131 AATCTTGCATCTTTGCAAATCTAGAACCTTTACGAAACTCAAAGTCTTGAAAATCT-TTCTTTCT
* * * * *
22505154 TACAAATCT--TAC
195 TGCGAACCTGAAAA
* * *
22505166 A-TCTTGCAAATCTTTCTTTCTTGCGAACCTAAAAATCCTTGCAAATTTTGCAT
1 AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGCAT
22505219 CTTGCAAATC
Statistics
Matches: 219, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
206 48 0.22
207 3 0.01
208 159 0.73
209 9 0.04
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (208 bp):
AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGCATATTTATGAATC
TAAAACCTCTACAAAACTTGGAGTCTTACAAATCTTTCTTTCTTATGAACCTAAAAATCCTTGCA
AATCTTGCATCTTTGCAAATCTAGAACCTTTACGAAACTCAAAGTCTTGAAAATCTTTCTTTCTT
GCGAACCTGAAAA
Found at i:22505110 original size:86 final size:86
Alignment explanation
Indices: 22504959--22505144 Score: 237
Period size: 86 Copynumber: 2.2 Consensus size: 86
22504949 AACCTGAAAA
* * **
22504959 AGTCTTGAAAATCTTTCTTTCTTGCGAACCTGAAAATCCTTGCAAATCTTGTATCTTTATGAATC
1 AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGTATCTTTACAAATC
*
22505024 TAAAACCTTTATGAAATTTGG
66 TAAAACCTTTACGAAATTTGG
** * *
22505045 AGTCTTGTGAATCTTTCTTTCTTATGAACCTAAAAATCCTTGCAAATCTTGTATCTTTGCAAATC
1 AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGTATCTTTACAAATC
* * * **
22505110 TAGAACTTTTACGAAACTTAA
66 TAAAACCTTTACGAAATTTGG
*
22505131 AGTCTTGCAAATCT
1 AGTCTTGAAAATCT
22505145 GAAAATCCTT
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (86 bp):
AGTCTTGAAAATCTTTCTTTCTTACGAACCTAAAAATCCTTGCAAATCTTGTATCTTTACAAATC
TAAAACCTTTACGAAATTTGG
Found at i:22505171 original size:34 final size:33
Alignment explanation
Indices: 22505077--22505178 Score: 91
Period size: 34 Copynumber: 3.0 Consensus size: 33
22505067 TATGAACCTA
* **
22505077 AAAATCCTTGCAAATCTTGTATCTTTGCAAATCT
1 AAAATCCTTACAAATCTTAAATC-TTGCAAATCT
* *
22505111 AGAA-CTTTTACGAAA-CTTAAAGTCTTGCAAATCT
1 AAAATC-CTTAC-AAATCTTAAA-TCTTGCAAATCT
*
22505145 GAAAATCCTTACAAATCTTACATCTTGCAAATCT
1 -AAAATCCTTACAAATCTTAAATCTTGCAAATCT
22505179 TTCTTTCTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
33 1 0.02
34 35 0.65
35 17 0.31
36 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (33 bp):
AAAATCCTTACAAATCTTAAATCTTGCAAATCT
Found at i:22505259 original size:51 final size:51
Alignment explanation
Indices: 22505133--22505266 Score: 169
Period size: 51 Copynumber: 2.6 Consensus size: 51
22505123 AAACTTAAAG
* * * * * *
22505133 TCTTGCAAATCTGAAAATCCTTACAAATCTTACATCTTGCAAATCTTTCTT
1 TCTTGCGAATCTGAAAATCCTTGCAAATTTTGCATCTTGCAAATCTTCCAT
* *
22505184 TCTTGCGAACCTAAAAATCCTTGCAAATTTTGCATCTTGCAAATCTTCCAT
1 TCTTGCGAATCTGAAAATCCTTGCAAATTTTGCATCTTGCAAATCTTCCAT
* **
22505235 TCTTGTGAATCTGAAAATTTTTGCAAATTTTG
1 TCTTGCGAATCTGAAAATCCTTGCAAATTTTG
22505267 AATCCTTATG
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.40
Consensus pattern (51 bp):
TCTTGCGAATCTGAAAATCCTTGCAAATTTTGCATCTTGCAAATCTTCCAT
Found at i:22506098 original size:20 final size:20
Alignment explanation
Indices: 22506057--22506095 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22506047 GTTTGAAAAA
* *
22506057 TTTTGGGCTTAGATTTAGGT
1 TTTTGGGATTAGATTGAGGT
22506077 TTTTGGGATTAGATCTGAG
1 TTTTGGGATTAGAT-TGAG
22506096 TTTAAGGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.05, G:0.31, T:0.46
Consensus pattern (20 bp):
TTTTGGGATTAGATTGAGGT
Found at i:22506518 original size:17 final size:17
Alignment explanation
Indices: 22506492--22506567 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 17
22506482 AATCGCAGGT
*
22506492 TTTTC-TTTTTTTTTTCA
1 TTTTCATTTTATTTTT-A
22506509 TTTTCATTTTATTTTTA
1 TTTTCATTTTATTTTTA
*
22506526 TTTTTTGATTTTA-TTTTA
1 --TTTTCATTTTATTTTTA
22506544 TTTACTCATTTTATTTTTAA
1 TTT--TCATTTTATTTTT-A
22506564 TTTT
1 TTTT
22506568 TATTATTTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.06
17 6 0.12
18 22 0.45
19 14 0.29
20 4 0.08
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTTCATTTTATTTTTA
Found at i:22506707 original size:18 final size:19
Alignment explanation
Indices: 22506669--22506710 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
22506659 AAATGATTCT
*
22506669 ATAAAAAAATCTTTTTTAA
1 ATAAAAAAATCTTTTTCAA
22506688 ATAAAAAAATC-TTTTCAA
1 ATAAAAAAATCTTTTTCAA
22506706 ATAAA
1 ATAAA
22506711 GTTTACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAAAAATCTTTTTCAA
Found at i:22506834 original size:15 final size:17
Alignment explanation
Indices: 22506808--22506842 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
22506798 CCAATAATAA
22506808 AAAAATCTTTTCAA-AT
1 AAAAATCTTTTCAAGAT
22506824 AAAAATC-TTTCAAGAT
1 AAAAATCTTTTCAAGAT
22506840 AAA
1 AAA
22506843 TTCATGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAAATCTTTTCAAGAT
Found at i:22507666 original size:33 final size:34
Alignment explanation
Indices: 22507616--22507680 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
22507606 TCCTAAATCT
22507616 AAATCCAAAACCTTAAACCCTAACCCTAAACTAA
1 AAATCCAAAACCTTAAACCCTAACCCTAAACTAA
22507650 AAATCCAAAACC-TAAACCCTAACCCTAAACT
1 AAATCCAAAACCTTAAACCCTAACCCTAAACT
22507681 TTGAAACCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 19 0.61
34 12 0.39
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (34 bp):
AAATCCAAAACCTTAAACCCTAACCCTAAACTAA
Found at i:22507948 original size:15 final size:14
Alignment explanation
Indices: 22507921--22507947 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22507911 CATCTCATGT
22507921 ATTGTTTTTTTTTA
1 ATTGTTTTTTTTTA
22507935 ATTGTTTTTTTTT
1 ATTGTTTTTTTTT
22507948 TCAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.81
Consensus pattern (14 bp):
ATTGTTTTTTTTTA
Found at i:22511716 original size:116 final size:117
Alignment explanation
Indices: 22511564--22511796 Score: 423
Period size: 117 Copynumber: 2.0 Consensus size: 117
22511554 AAGATTTCAG
* * *
22511564 AAGCCACTGTTCGGTACAAATTAACTAGTGCATAGCAACTT-TATTAGATGGCTAGTGCTTCGCA
1 AAGCCACTGTTCGATACAAATTAACTAGTGCATAGCAACTTCAATTAGATGGCTAGTGCTTCACA
22511628 AAATAGAAATTCTATTAACAATAGAAGGCCCTAAACTCATCCTTAATTCTGT
66 AAATAGAAATTCTATTAACAATAGAAGGCCCTAAACTCATCCTTAATTCTGT
*
22511680 AAGCCACTGTTCGATACAAATTAACTAGTGCGTAGCAACTTCAATTAGATGGCTAGTGCTTCACA
1 AAGCCACTGTTCGATACAAATTAACTAGTGCATAGCAACTTCAATTAGATGGCTAGTGCTTCACA
22511745 AAATAGAAATTCTATTAACAATAGAAGGCCCTAAACTCATCCTTAATTCTGT
66 AAATAGAAATTCTATTAACAATAGAAGGCCCTAAACTCATCCTTAATTCTGT
22511797 GTAAATATGT
Statistics
Matches: 112, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
116 39 0.35
117 73 0.65
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (117 bp):
AAGCCACTGTTCGATACAAATTAACTAGTGCATAGCAACTTCAATTAGATGGCTAGTGCTTCACA
AAATAGAAATTCTATTAACAATAGAAGGCCCTAAACTCATCCTTAATTCTGT
Found at i:22512068 original size:12 final size:12
Alignment explanation
Indices: 22512051--22512075 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22512041 ATTATATGTA
22512051 AAAATATTATTT
1 AAAATATTATTT
22512063 AAAATATTATTT
1 AAAATATTATTT
22512075 A
1 A
22512076 TAATTCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAATATTATTT
Found at i:22519665 original size:25 final size:26
Alignment explanation
Indices: 22519631--22519682 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
22519621 ATATAATAAA
22519631 TTTATTATATAT-ATTTTGGTGAGGT
1 TTTATTATATATAATTTTGGTGAGGT
22519656 TTTATTATATATAAATTTTGGTGAGGT
1 TTTATTATATAT-AATTTTGGTGAGGT
22519683 CTATGTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 12 0.48
27 13 0.52
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (26 bp):
TTTATTATATATAATTTTGGTGAGGT
Found at i:22522206 original size:2 final size:2
Alignment explanation
Indices: 22522162--22522192 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22522152 GGAAACTGAC
22522162 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
22522193 GAATGCTTTA
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:22523391 original size:27 final size:27
Alignment explanation
Indices: 22523360--22523411 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22523350 CATCGAAGCT
*
22523360 AGTTAGTTAGAATATATAGAATATGTA
1 AGTTAGTTAGAATATATACAATATGTA
22523387 AGTTAGTTAGAATATATACAATATG
1 AGTTAGTTAGAATATATACAATATG
22523412 CAAGCATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (27 bp):
AGTTAGTTAGAATATATACAATATGTA
Found at i:22525682 original size:2 final size:2
Alignment explanation
Indices: 22525677--22525701 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22525667 ACACACACTC
22525677 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
22525702 GAGAGAGAGA
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:22525706 original size:2 final size:2
Alignment explanation
Indices: 22525701--22525725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22525691 ATATATATAT
22525701 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
22525726 TATAGATAGA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22527147 original size:19 final size:19
Alignment explanation
Indices: 22527123--22527161 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22527113 ATATTATACT
* *
22527123 TGGTTGGCCTTGTCTTGAA
1 TGGTTGGCCTCGTCTCGAA
22527142 TGGTTGGCCTCGTCTCGAA
1 TGGTTGGCCTCGTCTCGAA
22527161 T
1 T
22527162 ACATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.21, G:0.31, T:0.38
Consensus pattern (19 bp):
TGGTTGGCCTCGTCTCGAA
Found at i:22531646 original size:11 final size:11
Alignment explanation
Indices: 22531632--22531665 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22531622 TAAAATTTTA
22531632 AAAAAATATAT
1 AAAAAATATAT
*
22531643 AAAAACTA-AT
1 AAAAAATATAT
22531653 AAAAAATATAT
1 AAAAAATATAT
22531664 AA
1 AA
22531666 TTTATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATATAT
Found at i:22533456 original size:23 final size:24
Alignment explanation
Indices: 22533426--22533474 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
22533416 AATAGTCCAA
22533426 AAAATATAAGAACTACATT-ATAT
1 AAAATATAAGAACTACATTAATAT
* *
22533449 AAAATATAAGAATTATATTAATAT
1 AAAATATAAGAACTACATTAATAT
22533473 AA
1 AA
22533475 GTGAATTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATATAAGAACTACATTAATAT
Found at i:22533465 original size:18 final size:17
Alignment explanation
Indices: 22533442--22533475 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22533432 TAAGAACTAC
22533442 ATTATATAAAATATAAGA
1 ATTATAT-AAATATAAGA
*
22533460 ATTATATTAATATAAG
1 ATTATATAAATATAAG
22533476 TGAATTCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTATATAAATATAAGA
Found at i:22534009 original size:2 final size:2
Alignment explanation
Indices: 22534004--22534043 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
22533994 CTTTTTTATA
22534004 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22534044 AATTATCGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22536833 original size:31 final size:34
Alignment explanation
Indices: 22536761--22536834 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 34
22536751 TTGGTAATAA
*
22536761 TATTTTTAAATCATATTTAACTATTATTTTATAGTT
1 TATTTTT--ATCATATTTAACTATTATTTTAAAGTT
*
22536797 T-TTTTTATCAT-TTT-ACTA-TATTTTAAATTT
1 TATTTTTATCATATTTAACTATTATTTTAAAGTT
22536827 TATTTTTA
1 TATTTTTA
22536835 AAATAACGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 11 0.31
31 10 0.29
32 3 0.09
33 5 0.14
35 5 0.14
36 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (34 bp):
TATTTTTATCATATTTAACTATTATTTTAAAGTT
Found at i:22539315 original size:59 final size:59
Alignment explanation
Indices: 22539249--22539408 Score: 195
Period size: 59 Copynumber: 2.7 Consensus size: 59
22539239 TCAACAAATT
* *
22539249 TCAACAAACAT-ATAACCAAAACCTAAACAAATTTCAACAAATATAA-AACTAACAAACAC
1 TCAACAAACATGGTAACCAAAACC-AAACAAATTTCAACAAATA-AATAACTAACAAAAAC
* *
22539308 TCAACAAA-TTGGTAACCAAAATCCAAATAAATTTCAACAAATAAATAACTAACAAAAAC
1 TCAACAAACATGGTAACCAAAA-CCAAACAAATTTCAACAAATAAATAACTAACAAAAAC
*
22539367 TCAAC--ACATTGGTAACCAAAGCCAAAACAAATTTCAACAAAT
1 TCAACAAACA-TGGTAACCAAAACC-AAACAAATTTCAACAAAT
22539409 CTATAATAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
57 1 0.01
58 5 0.06
59 80 0.91
60 2 0.02
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (59 bp):
TCAACAAACATGGTAACCAAAACCAAACAAATTTCAACAAATAAATAACTAACAAAAAC
Found at i:22543749 original size:25 final size:24
Alignment explanation
Indices: 22543715--22543765 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
22543705 TGTTTTTAAA
*
22543715 TTTTCCTAGGTTTTTGTTTGAATTT
1 TTTTCCTAGGTTTTT-CTTGAATTT
*
22543740 TTTTTCTAGGTTTTTCTTGAATTT
1 TTTTCCTAGGTTTTTCTTGAATTT
22543764 TT
1 TT
22543766 CGATGAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.12, C:0.08, G:0.14, T:0.67
Consensus pattern (24 bp):
TTTTCCTAGGTTTTTCTTGAATTT
Found at i:22544200 original size:18 final size:17
Alignment explanation
Indices: 22544149--22544200 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
22544139 TCCTTTCAAT
*
22544149 TTTTATTTTCTAATTTTA
1 TTTTATTTT-TATTTTTA
* *
22544167 TTTTATTTTTGCTTTTTG
1 TTTTATTTTT-ATTTTTA
22544185 TTTTGATTTTTATTTT
1 TTTT-ATTTTTATTTT
22544201 AACAATTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 21 0.75
19 6 0.21
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:22552913 original size:19 final size:19
Alignment explanation
Indices: 22552888--22552927 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22552878 GTGAAGGAAA
* *
22552888 GAAAAAAAA-TAAAAGAAT
1 GAAAAAAAAGAAAAAAAAT
22552906 GAAAAAAAAGAAAAAAAAT
1 GAAAAAAAAGAAAAAAAAT
22552925 GAA
1 GAA
22552928 TGAGGACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (19 bp):
GAAAAAAAAGAAAAAAAAT
Found at i:22552918 original size:9 final size:9
Alignment explanation
Indices: 22552885--22552923 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
22552875 AGGGTGAAGG
22552885 AAAGAAAAA
1 AAAGAAAAA
* *
22552894 AAATAAAAG
1 AAAGAAAAA
*
22552903 AATGAAAAA
1 AAAGAAAAA
22552912 AAAGAAAAA
1 AAAGAAAAA
22552921 AAA
1 AAA
22552924 TGAATGAGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:22553848 original size:49 final size:49
Alignment explanation
Indices: 22553787--22553886 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 49
22553777 ACAAGATTCC
* * *
22553787 TTTTAAAGTTTCAAAGCCTTTATTTATGATGAGCCATTTTC-AGATAAGA
1 TTTTAAAGTTTCAAAGCCTTTATATATAAGGAGCCATTTTCTA-ATAAGA
*
22553836 TTTTAAAGTTTCAAAGCCTTTGTATATAAGGAGCCATTTTCTAATAAGA
1 TTTTAAAGTTTCAAAGCCTTTATATATAAGGAGCCATTTTCTAATAAGA
22553885 TT
1 TT
22553887 CTTTTAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 45 0.98
50 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (49 bp):
TTTTAAAGTTTCAAAGCCTTTATATATAAGGAGCCATTTTCTAATAAGA
Found at i:22553977 original size:25 final size:25
Alignment explanation
Indices: 22553937--22553984 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22553927 TTCGCCTTTG
* *
22553937 TTTATGGGGAGCAATTTTTAGACTA
1 TTTATGGGGAACAATTTTCAGACTA
*
22553962 TTTATGGGGAATAATTTTCAGAC
1 TTTATGGGGAACAATTTTCAGAC
22553985 AAGAACTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (25 bp):
TTTATGGGGAACAATTTTCAGACTA
Found at i:22555026 original size:9 final size:9
Alignment explanation
Indices: 22555012--22555049 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
22555002 GGCCGGTAAT
22555012 AGGGAAGAG
1 AGGGAAGAG
22555021 AGGGAAGAG
1 AGGGAAGAG
22555030 AGGGAAGAG
1 AGGGAAGAG
22555039 AGGGGAAGAG
1 A-GGGAAGAG
22555049 A
1 A
22555050 AAGAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (9 bp):
AGGGAAGAG
Found at i:22555626 original size:46 final size:42
Alignment explanation
Indices: 22555504--22555628 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 42
22555494 ATATATATAT
* * * *
22555504 GTATATATATTTTGCACCTGCATGGCTGTTCTCTATTTCTGC
1 GTATATATTTTTTGCATCTGCATGGCTGTTCCCTGTTTCTGC
* * * * *
22555546 GTATAT-TTTTCTACATCTGAATGGATGTTTCCTGTTTCTGC
1 GTATATATTTTTTGCATCTGCATGGCTGTTCCCTGTTTCTGC
22555587 GTATATATATATTTTTTGCATCTGCATGGCTGTTCCCTGTTT
1 G----TATATATTTTTTGCATCTGCATGGCTGTTCCCTGTTT
22555629 GTTCCCTGTT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 27 0.42
42 6 0.09
45 5 0.08
46 26 0.41
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (42 bp):
GTATATATTTTTTGCATCTGCATGGCTGTTCCCTGTTTCTGC
Found at i:22556273 original size:18 final size:18
Alignment explanation
Indices: 22556246--22556330 Score: 86
Period size: 18 Copynumber: 4.9 Consensus size: 18
22556236 CCTTTATTCT
22556246 TGATACATTTGAGGTGAA
1 TGATACATTTGAGGTGAA
*
22556264 TGATATATTTGA---GAA
1 TGATACATTTGAGGTGAA
* **
22556279 TGATACATTTGTGGTGGG
1 TGATACATTTGAGGTGAA
* * *
22556297 GGATACATTTGTGGTAAA
1 TGATACATTTGAGGTGAA
22556315 TGATACATTTGAGGTG
1 TGATACATTTGAGGTG
22556331 GATAATAACC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
15 13 0.25
18 39 0.75
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.36
Consensus pattern (18 bp):
TGATACATTTGAGGTGAA
Found at i:22556281 original size:15 final size:15
Alignment explanation
Indices: 22556246--22556289 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
22556236 CCTTTATTCT
22556246 TGATACATTTGAGGTGAA
1 TGATACATTTGA---GAA
*
22556264 TGATATATTTGAGAA
1 TGATACATTTGAGAA
22556279 TGATACATTTG
1 TGATACATTTG
22556290 TGGTGGGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
18 11 0.46
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (15 bp):
TGATACATTTGAGAA
Found at i:22556283 original size:33 final size:35
Alignment explanation
Indices: 22556246--22556330 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 35
22556236 CCTTTATTCT
* *
22556246 TGATACATTTGAGGTGAATGATATATTTG-AG-AA
1 TGATACATTTGAGGTGAAGGATACATTTGTAGAAA
* ** *
22556279 TGATACATTTGTGGTGGGGGATACATTTGTGGTAAA
1 TGATACATTTGAGGTGAAGGATACATTTGTAG-AAA
22556315 TGATACATTTGAGGTG
1 TGATACATTTGAGGTG
22556331 GATAATAACC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 24 0.57
34 1 0.02
36 17 0.40
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.36
Consensus pattern (35 bp):
TGATACATTTGAGGTGAAGGATACATTTGTAGAAA
Found at i:22556687 original size:6 final size:6
Alignment explanation
Indices: 22556676--22556706 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
22556666 CCAAAATTCA
22556676 CACCAT CACCAT CACCAT CACCAT CACCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT C
22556707 TGGACTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CACCAT
Found at i:22562725 original size:24 final size:24
Alignment explanation
Indices: 22562655--22562729 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
22562645 TTTTTAATAT
* *
22562655 ATATATATATATAATATGTAATAAA
1 ATATATATAAATAATATATAA-AAA
* *
22562680 ATATGATA-AAATAATTTTTAAAAA
1 ATAT-ATATAAATAATATATAAAAA
*
22562704 ATATATATAAATAATAAATAAAAA
1 ATATATATAAATAATATATAAAAA
22562728 AT
1 AT
22562730 TTTTTGTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 3 0.07
24 22 0.52
25 14 0.33
26 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (24 bp):
ATATATATAAATAATATATAAAAA
Found at i:22566570 original size:61 final size:60
Alignment explanation
Indices: 22566460--22566856 Score: 322
Period size: 61 Copynumber: 6.6 Consensus size: 60
22566450 TGGCATGAGA
*
22566460 AAAATTGATAACATTTCCAACTTTTCCT-CAAAAAT-TGATTTATTG-AAATTTATTTTTTAAAG
1 AAAATTGAT-AC-TTT-CAACTTTTCCTACAAAAATAT--TTTTTTGAAAATTTATTTTTTAAAG
* *
22566522 AAAATTGATTACTTTC-A-TTTATCCATACAAAAATATTTTTTTGAAAATTT-TGATTTTCAAG
1 AAAATTGA-TACTTTCAACTTT-TCC-TACAAAAATATTTTTTTGAAAATTTAT-TTTTTAAAG
* * * *
22566583 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAATTTTA-TTTTTAAGG
1 -AAAATTGATACTTTCAACTTTTCCT-ACAAAAA-TATTTTTTTGAAAATTTATTTTTTAAAG
** *
22566645 AAAATTGATACTTTCAACTTTTCC--CAAAAATA-TTTTTTGAAAAACTTTGCTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTACAAAAATATTTTTTTG-AAAA-TTTATTTTTTAAAG
* * *** *
22566704 AAAATTGATACTTTCAACTTTT-CTTCAAAAAAAGCTTTTTTTTTTAATTT-TATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTACAAAAATA--TTTTTTTGAAAATTTAT-TTTTTAAAG
* ** * *
22566765 AAAATTGATACTTTCAACTTTTTCTTA-AAAAA-AACTTTTTGAAATTTTA-TTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTACAAAAATATTTTTTTGAAAATTTATTTTTTAAAG
*
22566823 AAAATTGATACTTTCAACTTTTCC-CCAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCTACAAAAATAT
22566857 ATATTTTTTA
Statistics
Matches: 279, Mismatches: 29, Indels: 58
0.76 0.08 0.16
Matches are distributed among these distances:
56 7 0.03
57 14 0.05
58 40 0.14
59 44 0.16
60 16 0.06
61 86 0.31
62 46 0.16
63 26 0.09
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTACAAAAATATTTTTTTGAAAATTTATTTTTTAAAG
Found at i:22566720 original size:120 final size:118
Alignment explanation
Indices: 22566460--22566853 Score: 453
Period size: 120 Copynumber: 3.3 Consensus size: 118
22566450 TGGCATGAGA
* * *
22566460 AAAATTGATAACATTTCCAACTTTTCCTC--AAAAA-TTGATTTATTGAAA-TTTATTTTTTAAA
1 AAAATTGAT-AC-TTT-CAACTTTTCCTCAAAAAAACTT-TTTTTTTGAAATTTTA-TTTTTAAG
* *
22566521 GAAAATTGATTACTTTC-A-TTTATCCATACAAAAATATTTTTTTGAAAATTTTGATTTTCAAGA
61 GAAAATTGA-TACTTTCAACTTT-TCC---CAAAAATA-TTTTTTGAAAA-TTTGATTTTTAAGG
22566584 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAATTTTATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAATTTTATTTTTAAGGAAAA
*
22566649 TTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAAACTTTGCTTTTTAAGG
66 TTGATACTTTCAACTTTTCCCAAAAATATTTTTTG-AAAA-TTTGATTTTTAAGG
* *
22566704 AAAATTGATACTTTCAACTTTTCTTCAAAAAAAGCTTTTTTTTT-TAATTTTATTTTTAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAA-CTTTTTTTTTGAAATTTTATTTTTAAGGAAA
** * * *
22566768 ATTGATACTTTCAACTTTTTCTTAAAAAAAACTTTTTG-AAATTTTATTTTTAAGG
65 ATTGATACTTTCAAC-TTTTC-CCAAAAATATTTTTTGAAAATTTGATTTTTAAGG
*
22566823 AAAATTGATACTTTCAACTTTTCCCCAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA
22566854 TATATATTTT
Statistics
Matches: 243, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
119 48 0.20
120 92 0.38
121 27 0.11
122 22 0.09
123 36 0.15
124 18 0.07
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTTGAAATTTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAATTTGATTTTTAAGG
Found at i:22566917 original size:25 final size:23
Alignment explanation
Indices: 22566887--22566964 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 23
22566877 AAGAAAATTG
22566887 AATAATAAAACAAAATAATAATGAA
1 AATAATAAAACAAAATAA-AAT-AA
22566912 AATAAT-AAA-AAAATAAAATAA
1 AATAATAAAACAAAATAAAATAA
*
22566933 AGAAAAGTAAAACAAAAATAAAAATAA
1 A-ATAA-TAAAAC-AAAAT-AAAATAA
22566960 AATAA
1 AATAA
22566965 AGATAAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.07
22 6 0.13
23 8 0.18
24 6 0.13
25 6 0.13
26 8 0.18
27 8 0.18
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.17
Consensus pattern (23 bp):
AATAATAAAACAAAATAAAATAA
Found at i:22566944 original size:6 final size:5
Alignment explanation
Indices: 22566890--22566972 Score: 60
Period size: 5 Copynumber: 15.4 Consensus size: 5
22566880 AAAATTGAAT
* *
22566890 AATAA AACAA AATAA TAATGAA AATAA TAAAAA AATAA AATAA AGA-AA
1 AATAA AATAA AATAA -AAT-AA AATAA -AATAA AATAA AATAA A-ATAA
* *
22566938 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
22566973 AGAATATTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
5 35 0.56
6 25 0.40
7 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:22566955 original size:17 final size:17
Alignment explanation
Indices: 22566890--22566973 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 17
22566880 AAAATTGAAT
*
22566890 AATAAAAC-AAAATAAT
1 AATAAAACAAAAATAAA
* *
22566906 AATGAAAATAATAA-AAA
1 AAT-AAAACAAAAATAAA
* *
22566923 AAT-AAA-ATAAAGAAA
1 AATAAAACAAAAATAAA
*
22566938 AGTAAAACAAAAATAAA
1 AATAAAACAAAAATAAA
* *
22566955 AATAAAATAAAGATAAA
1 AATAAAACAAAAATAAA
22566972 AA
1 AA
22566974 GAATATTAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
14 3 0.06
15 8 0.15
16 6 0.12
17 32 0.62
18 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.15
Consensus pattern (17 bp):
AATAAAACAAAAATAAA
Found at i:22567005 original size:4 final size:4
Alignment explanation
Indices: 22566996--22567041 Score: 58
Period size: 4 Copynumber: 11.2 Consensus size: 4
22566986 AAACTAATCT
*
22566996 AATA AATAA AAAA AATA AAT- AATAA AATA AATA AATA AATA AATA A
1 AATA AAT-A AATA AATA AATA AAT-A AATA AATA AATA AATA AATA A
22567042 GAAAAAAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
4 28 0.76
5 6 0.16
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:22567024 original size:12 final size:12
Alignment explanation
Indices: 22566898--22567046 Score: 64
Period size: 12 Copynumber: 12.3 Consensus size: 12
22566888 ATAATAAAAC
22566898 AAAAT-AATAAT
1 AAAATAAATAAT
*
22566909 GAAAAT-AATAAA
1 -AAAATAAATAAT
*
22566921 AAAATAAAATAAAG
1 AAAAT-AAAT-AAT
22566935 AAAAGTAAA-ACA-
1 AAAA-TAAATA-AT
22566947 AAAATAAA-AAT
1 AAAATAAATAAT
*
22566958 AAAATAAA-GAT
1 AAAATAAATAAT
*
22566969 AAAA-AGAATATT
1 AAAATA-AATAAT
*
22566981 AACTAA-AACTAAT
1 AA--AATAAATAAT
** *
22566994 CTAATAAATAAAA
1 AAAATAAAT-AAT
22567007 AAAATAAATAAT
1 AAAATAAATAAT
22567019 AAAATAAATAA-
1 AAAATAAATAAT
*
22567030 ATAAATAAATAAG
1 A-AAATAAATAAT
22567043 AAAA
1 AAAA
22567047 AAACCTGGAG
Statistics
Matches: 109, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
10 2 0.02
11 29 0.27
12 47 0.43
13 18 0.17
14 12 0.11
15 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:22567041 original size:16 final size:17
Alignment explanation
Indices: 22566996--22567038 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
22566986 AAACTAATCT
*
22566996 AATAAATAAAAAAAATA
1 AATAAATAAAATAAATA
22567013 AAT-AATAAAATAAATA
1 AATAAATAAAATAAATA
22567029 AATAAATAAA
1 AATAAATAAA
22567039 TAAGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAATAAAATAAATA
Found at i:22567390 original size:20 final size:19
Alignment explanation
Indices: 22567361--22567405 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22567351 TGAATGTACG
*
22567361 TCGAATTCTGGAAAATTTCA
1 TCGAAATCTGG-AAATTTCA
**
22567381 TCGAAATCTGGATTTTTCA
1 TCGAAATCTGGAAATTTCA
22567400 TCGAAA
1 TCGAAA
22567406 GTTCACCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TCGAAATCTGGAAATTTCA
Found at i:22567977 original size:18 final size:17
Alignment explanation
Indices: 22567954--22568044 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 17
22567944 ATATAATTAG
22567954 ATAAATAAAAATACAAAA
1 ATAAATAAAAATA-AAAA
*
22567972 ATAAATAAAATTAAAAA
1 ATAAATAAAAATAAAAA
22567989 AT---TAAAAATAAAAA
1 ATAAATAAAAATAAAAA
* ** *
22568003 TATATATATTAATAAATA
1 -ATAAATAAAAATAAAAA
* *
22568021 GT-AATAATAAATAAATA
1 ATAAATAA-AAATAAAAA
22568038 ATAAATA
1 ATAAATA
22568045 CATAGGATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 11 0.19
15 2 0.04
16 3 0.05
17 16 0.28
18 25 0.44
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (17 bp):
ATAAATAAAAATAAAAA
Found at i:22568044 original size:28 final size:28
Alignment explanation
Indices: 22567995--22568049 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
22567985 AAAAATTAAA
* *
22567995 AATAAAAATATATATATTAATAAATAGT
1 AATAAAAATAAATATATAAATAAATAGT
*
22568023 AATAATAAATAAATA-ATAAATACATAG
1 AATAA-AAATAAATATATAAATAAATAG
22568050 GATATAGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (28 bp):
AATAAAAATAAATATATAAATAAATAGT
Found at i:22568088 original size:25 final size:25
Alignment explanation
Indices: 22568037--22568101 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
22568027 ATAAATAAAT
** *
22568037 AATAAATACATAGGATATAGAGGAA
1 AATAAATACATAAAATATAGAAGAA
* *
22568062 AATATATACATAAAATATAGAATAA
1 AATAAATACATAAAATATAGAAGAA
* *
22568087 AATAAAAAAATAAAA
1 AATAAATACATAAAA
22568102 AATGATAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (25 bp):
AATAAATACATAAAATATAGAAGAA
Found at i:22568297 original size:18 final size:18
Alignment explanation
Indices: 22568264--22568326 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
22568254 CAACATTTTC
*
22568264 ATTTTTTGATTTTTTTAT
1 ATTTTTTGTTTTTTTTAT
*
22568282 ATTTTTTGTTTTTTTTGT
1 ATTTTTTGTTTTTTTTAT
*
22568300 -TTGCTTTTGTTTTTGTTTTT
1 ATT--TTTTGTTTTT-TTTAT
22568320 ATTTTTT
1 ATTTTTT
22568327 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.05
18 16 0.42
19 14 0.37
20 4 0.11
21 2 0.05
ACGTcount: A:0.08, C:0.02, G:0.10, T:0.81
Consensus pattern (18 bp):
ATTTTTTGTTTTTTTTAT
Found at i:22568482 original size:83 final size:83
Alignment explanation
Indices: 22568337--22568591 Score: 408
Period size: 83 Copynumber: 3.1 Consensus size: 83
22568327 TTTAACCAAA
* *
22568337 GCTCCTCTAAACAGAGGCT-CAACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGG-TACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
22568401 CGACTTTTGGGAAAGTAAATT
64 CGAC-TTTGGAAAAGTAAATT
* *
22568422 ACTCCTCTAAATAGAGGTACCACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
22568486 ACTTTGGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
*
22568504 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
22568569 ACTTT-GAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
22568586 GCTCCT
1 GCTCCT
22568592 TGACAATCAT
Statistics
Matches: 160, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
82 60 0.38
83 74 0.46
84 1 0.01
85 25 0.16
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAAGTAAATT
Found at i:22568549 original size:41 final size:41
Alignment explanation
Indices: 22568337--22568591 Score: 404
Period size: 42 Copynumber: 6.1 Consensus size: 41
22568327 TTTAACCAAA
* * *
22568337 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
22568379 GCTCCTCTAAACAGAGGCACCACGACTTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTT-GAAAAGTAAATT
* * *
22568422 ACTCCTCTAAATAGAGGTACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
22568462 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
22568504 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
22568545 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
22568586 GCTCCT
1 GCTCCT
22568592 TGACAATCAT
Statistics
Matches: 199, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
40 36 0.18
41 61 0.31
42 66 0.33
43 35 0.18
44 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:22569616 original size:8 final size:8
Alignment explanation
Indices: 22569605--22569693 Score: 60
Period size: 8 Copynumber: 10.8 Consensus size: 8
22569595 CACCTTTTTG
22569605 TTTTTTCA
1 TTTTTTCA
22569613 TTTTTTTCCA
1 -TTTTTT-CA
*
22569623 TTTTTCCA
1 TTTTTTCA
22569631 TTTTTT--
1 TTTTTTCA
22569637 TTTTATT--
1 TTTT-TTCA
*
22569644 TTTTCATCAA
1 TTTT-TTC-A
22569654 TTTTTTTCA
1 T-TTTTTCA
22569663 TTTTTTTCA
1 -TTTTTTCA
*
22569672 TGTTTTCA
1 TTTTTTCA
22569680 TTTTTTCA
1 TTTTTTCA
22569688 TTTTTT
1 TTTTTT
22569694 TAAAGCATAG
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
6 4 0.06
7 7 0.11
8 27 0.41
9 19 0.29
10 6 0.09
11 3 0.05
ACGTcount: A:0.12, C:0.12, G:0.01, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:22569657 original size:31 final size:31
Alignment explanation
Indices: 22569600--22569669 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
22569590 TTTTTCACCT
*
22569600 TTTTGTTTTTTCATTTTTTTCCA-TTTTTCCA
1 TTTT-TTTTTTCATTTTTTTCAATTTTTTCCA
*
22569631 TTTTTTTTTT-ATTTTTTCATCAATTTTTTTCA
1 TTTTTTTTTTCATTTTTT--TCAATTTTTTCCA
22569663 TTTTTTT
1 TTTTTTT
22569670 CATGTTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 7 0.21
30 6 0.18
31 7 0.21
32 14 0.41
ACGTcount: A:0.11, C:0.11, G:0.01, T:0.76
Consensus pattern (31 bp):
TTTTTTTTTTCATTTTTTTCAATTTTTTCCA
Found at i:22571258 original size:21 final size:20
Alignment explanation
Indices: 22571228--22571281 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
22571218 GAGCTTTGGT
22571228 AAAAAA-AAAAATAAAAAAAC
1 AAAAAACAAAAA-AAAAAAAC
* * *
22571248 ACAAAACAAAAGAAAAAACAT
1 AAAAAACAAAA-AAAAAAAAC
22571269 AAAAAACAAAAAA
1 AAAAAACAAAAAA
22571282 TGACAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.25
21 20 0.71
22 1 0.04
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (20 bp):
AAAAAACAAAAAAAAAAAAC
Found at i:22571272 original size:28 final size:27
Alignment explanation
Indices: 22571228--22571281 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
22571218 GAGCTTTGGT
*
22571228 AAAAAAAAAAATAAAAAAACACAAAAC
1 AAAAAAAAAAATAAAAAAACAAAAAAC
22571255 AAAAGAAAAAACAT-AAAAAACAAAAAA
1 AAAA-AAAAAA-ATAAAAAAACAAAAAA
22571282 TGACAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 18 0.75
29 2 0.08
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (27 bp):
AAAAAAAAAAATAAAAAAACAAAAAAC
Found at i:22571475 original size:9 final size:10
Alignment explanation
Indices: 22571463--22571516 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
22571453 TTTTTTCTTT
22571463 TGTATT-TTA
1 TGTATTATTA
22571472 TGTATT-TTA
1 TGTATTATTA
22571481 T-TATTTATTA
1 TGTA-TTATTA
22571491 T-TATTATTA
1 TGTATTATTA
22571500 TGTATTAATATA
1 TGTATT-AT-TA
22571512 TGTAT
1 TGTAT
22571517 ATCTGTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
TGTATTATTA
Done.