Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 48 of 133
Found at i:10256818 original size:26 final size:24
Alignment explanation
Indices: 10256777--10256828 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
10256767 AATTTCAGGA
**
10256777 TTTTTTTAAAAATTTTGGCAAATT
1 TTTTTTTAAAAATTTTGAAAAATT
*
10256801 TTTTTTCTAGAAATTTTTGAAAAATT
1 TTTTTT-TA-AAAATTTTGAAAAATT
10256827 TT
1 TT
10256829 CAGATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 2 0.09
26 15 0.65
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTTTTTAAAAATTTTGAAAAATT
Found at i:10256828 original size:25 final size:24
Alignment explanation
Indices: 10256777--10256828 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
10256767 AATTTCAGGA
* *
10256777 TTTTTTTAAAAATTTTGGCAAATT
1 TTTTTTTAAAAATTTTGGAAAAAT
* *
10256801 TTTTTTCTAGAAATTTTTGAAAAAT
1 TTTTTT-TAAAAATTTTGGAAAAAT
10256826 TTT
1 TTT
10256829 CAGATTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (24 bp):
TTTTTTTAAAAATTTTGGAAAAAT
Found at i:10257367 original size:18 final size:18
Alignment explanation
Indices: 10257331--10257380 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
10257321 CCAGTTTTTT
*
10257331 TTTATTTTTTTA-TATTTA
1 TTTATTTATTTATTA-TTA
10257349 TTTATTTATTTATTATTA
1 TTTATTTATTTATTATTA
10257367 -TTA-TTA-TTATTATT
1 TTTATTTATTTATTATT
10257381 TATTGATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 3 0.10
18 14 0.47
19 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTATTATTA
Found at i:10257427 original size:24 final size:23
Alignment explanation
Indices: 10257406--10257471 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
10257396 AATTATTCAG
10257406 TATTTCTTAT-TTTAT-TTTATTC
1 TATTT-TTATCTTTATCTTTATTC
10257428 TATTTTTATCTTTATCTTTATT-
1 TATTTTTATCTTTATCTTTATTC
* *
10257450 TTTATTTTAT-TTTATTTTTATT
1 TAT-TTTTATCTTTATCTTTATT
10257472 ATTTTCTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.10
22 23 0.59
23 12 0.31
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (23 bp):
TATTTTTATCTTTATCTTTATTC
Found at i:10257443 original size:6 final size:5
Alignment explanation
Indices: 10257412--10257476 Score: 69
Period size: 5 Copynumber: 12.4 Consensus size: 5
10257402 TCAGTATTTC
*
10257412 TTATT TTATT TTATT CTATTT TTATCT TTATCT TTATTT TTATT TTATT
1 TTATT TTATT TTATT TTA-TT TTAT-T TTAT-T TTA-TT TTATT TTATT
*
10257461 TTATT TT-TA TTATT TT
1 TTATT TTATT TTATT TT
10257477 CTTCAAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 3 0.06
5 30 0.58
6 18 0.35
7 1 0.02
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:10257559 original size:59 final size:58
Alignment explanation
Indices: 10257494--10257651 Score: 230
Period size: 59 Copynumber: 2.7 Consensus size: 58
10257484 TAAAATTCAA
10257494 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCATTGAAATATAAG-CTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC-TTGAAA-ATAAGTCTTTCT
* * *
10257553 AAAAAATGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATAAG-TCTTTCT
*
10257613 AAAAAA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
10257652 CTTATATAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
58 10 0.11
59 64 0.71
60 16 0.18
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGTCTTTCT
Found at i:10264815 original size:19 final size:19
Alignment explanation
Indices: 10264778--10264815 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10264768 TTTTTTATAT
*
10264778 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
10264797 TTATTTATTGATTA-GATTA
1 TTATTTATT-ATTATGATTA
10264816 GAATTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:10264843 original size:5 final size:5
Alignment explanation
Indices: 10264833--10264897 Score: 60
Period size: 5 Copynumber: 12.4 Consensus size: 5
10264823 TCAATATTTC
* *
10264833 TTATT TTATT TTATT CTATTT TTATCT TTTTT TTATTT TTATTT TTATT
1 TTATT TTATT TTATT TTA-TT TTAT-T TTATT TTA-TT TTA-TT TTATT
*
10264882 TTATT TT-TA TTATT TT
1 TTATT TTATT TTATT TT
10264898 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 3 0.06
5 28 0.56
6 19 0.38
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:10264857 original size:11 final size:11
Alignment explanation
Indices: 10264827--10264892 Score: 82
Period size: 11 Copynumber: 5.9 Consensus size: 11
10264817 AATTATTCAA
10264827 TATTTCTTATTT
1 TATTT-TTATTT
*
10264839 TA-TTTTATTC
1 TATTTTTATTT
10264849 TATTTTTATCTT
1 TATTTTTAT-TT
10264861 T-TTTTTATTTT
1 TATTTTTA-TTT
10264872 TATTTTTATTT
1 TATTTTTATTT
10264883 TATTTTTATT
1 TATTTTTATT
10264893 ATTTTCTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
10 7 0.15
11 30 0.62
12 11 0.23
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:10264871 original size:17 final size:16
Alignment explanation
Indices: 10264836--10264902 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 16
10264826 ATATTTCTTA
* *
10264836 TTTTATTTTATTCTAT
1 TTTTATTTTTTTTTAT
10264852 TTTTATCTTTTTTTTAT
1 TTTTAT-TTTTTTTTAT
10264869 TTTTATTTTTATTTTAT
1 TTTTATTTTT-TTTTAT
10264886 TTTTATTATTTTCTTTA
1 TTTTATT-TTTT-TTTA
10264903 AATAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.22
17 28 0.62
18 7 0.16
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTTTTAT
Found at i:10264875 original size:23 final size:22
Alignment explanation
Indices: 10264827--10264892 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 22
10264817 AATTATTCAA
*
10264827 TATTTCTTATTTTATTTTA-TTC
1 TATTT-TTATTTTTTTTTATTTC
*
10264849 TATTTTTATCTTTTTTTTATTTT
1 TATTTTTAT-TTTTTTTTATTTC
10264872 TATTTTTATTTTATTTTTATT
1 TATTTTTATTTT-TTTTTATT
10264893 ATTTTCTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.10
22 16 0.41
23 19 0.49
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (22 bp):
TATTTTTATTTTTTTTTATTTC
Found at i:10264902 original size:23 final size:22
Alignment explanation
Indices: 10264829--10264902 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
10264819 TTATTCAATA
10264829 TTTC-TTATTTTA-TTTTATTCT
1 TTTCTTTATTTTATTTTTATT-T
*
10264850 ATT-TTTATCTTT-TTTTTATTT
1 TTTCTTTAT-TTTATTTTTATTT
*
10264871 TTATTTTTATTTTATTTTTATTAT
1 TT-TCTTTATTTTATTTTTATT-T
10264895 TTTCTTTA
1 TTTCTTTA
10264903 AATAAAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
21 8 0.19
22 14 0.33
23 18 0.42
24 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTATTTTATTTTTATTT
Found at i:10264979 original size:62 final size:60
Alignment explanation
Indices: 10264913--10265080 Score: 228
Period size: 60 Copynumber: 2.8 Consensus size: 60
10264903 AATAAAATTC
*
10264913 AAAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
** *
10264973 CTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTTT
1 AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
** * * * *
10265033 AAAAAAGGGTTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAA--AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
10265081 TACAAAAGCA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 60 0.65
62 33 0.35
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTT
Found at i:10266112 original size:20 final size:20
Alignment explanation
Indices: 10266072--10266112 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10266062 TTTTGTGGTT
10266072 AAATATTTTATTAATTTTGTG
1 AAATATTTTA-TAATTTTGTG
10266093 AAATATTTTA-AATCTTTGTG
1 AAATATTTTATAAT-TTTGTG
10266113 CTCAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 6 0.32
21 10 0.53
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (20 bp):
AAATATTTTATAATTTTGTG
Found at i:10273641 original size:12 final size:12
Alignment explanation
Indices: 10273617--10273651 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10273607 TTCAAAGCCA
10273617 AAAATAAAGAAAC
1 AAAATAAA-AAAC
*
10273630 ACAATAAAAAAC
1 AAAATAAAAAAC
10273642 AAAATAAAAA
1 AAAATAAAAA
10273652 TTTTTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.09
Consensus pattern (12 bp):
AAAATAAAAAAC
Found at i:10275389 original size:145 final size:143
Alignment explanation
Indices: 10275219--10275517 Score: 379
Period size: 145 Copynumber: 2.1 Consensus size: 143
10275209 TTTGACCTCT
* * * * *
10275219 GATTTTCATAAAACCTTTTAGATCTTAATTTTATAATATTTCATAATTTTTGGA-GCATTTGAAA
1 GATTTTCATGAAACCTTTTAAATCTTAATTTCATAACAATTCATAATTTTT-GATGCATTTGAAA
* *
10275283 TCACAGCAGTACCCCCAAAAGTATGAAATTACCAAAATA-CCCTTATAAAGGTATTTTCATAATT
65 TCACAACAGTACCCCAAAAAGTATGAAATTACCAAAATATCCC-TATAAAGGT-TTTTCAT-ATT
10275347 TGGCCTTCCAAAGCTCG
127 TGGCCTTCCAAAGCTCG
* *
10275364 GATTTTCATGAAA-CTTTTCAAATCTTAATTTCATAACAATTCATGATTTTTTATGCATTTGAAA
1 GATTTTCATGAAACCTTTT-AAATCTTAATTTCATAACAATTCATAATTTTTGATGCATTTGAAA
* * * *
10275428 TCACAACATTACCCTAAAAAGTGTTAAATTACCAAAATATCCCTATAAAGGTTTTTCATATTTGG
65 TCACAACAGTACCCCAAAAAGTATGAAATTACCAAAATATCCCTATAAAGGTTTTTCATATTTGG
* ** *
10275493 CTTTCTTAAGCTTG
130 CCTTCCAAAGCTCG
10275507 GATTTTCATGA
1 GATTTTCATGA
10275518 TGTCATAACG
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
143 27 0.20
144 13 0.10
145 91 0.68
146 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (143 bp):
GATTTTCATGAAACCTTTTAAATCTTAATTTCATAACAATTCATAATTTTTGATGCATTTGAAAT
CACAACAGTACCCCAAAAAGTATGAAATTACCAAAATATCCCTATAAAGGTTTTTCATATTTGGC
CTTCCAAAGCTCG
Found at i:10275968 original size:16 final size:17
Alignment explanation
Indices: 10275949--10275985 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10275939 AAGAAAATTC
10275949 AAGAAAATAAAA-AAAA
1 AAGAAAATAAAATAAAA
*
10275965 AAG-AAATAAAATGAAA
1 AAGAAAATAAAATAAAA
10275981 AAGAA
1 AAGAA
10275986 GAAAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 9 0.50
17 1 0.06
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (17 bp):
AAGAAAATAAAATAAAA
Found at i:10275971 original size:15 final size:16
Alignment explanation
Indices: 10275953--10275985 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10275943 AAATTCAAGA
10275953 AAATAAAA-AAAAAAG
1 AAATAAAATAAAAAAG
*
10275968 AAATAAAATGAAAAAG
1 AAATAAAATAAAAAAG
10275984 AA
1 AA
10275986 GAAAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAATAAAATAAAAAAG
Found at i:10276180 original size:60 final size:59
Alignment explanation
Indices: 10276049--10276211 Score: 274
Period size: 60 Copynumber: 2.8 Consensus size: 59
10276039 TGCGTTTGTA
** *
10276049 CAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAATA-TTTTTTAAAAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAAACTTATTTT
10276107 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTA-AAAAACTTATTTT
*
10276167 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
10276212 TTGAAATTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
58 36 0.36
59 7 0.07
60 56 0.57
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAAACTTATTTT
Found at i:10276293 original size:6 final size:6
Alignment explanation
Indices: 10276277--10276320 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
10276267 TCTAATCAAT
*
10276277 AAATAA TAATAA AAATAA AAAT-A AAATAA ATAATAAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A-AAT-AA AAATAA A
10276321 TGAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.15
6 19 0.58
7 6 0.18
8 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:10276321 original size:18 final size:17
Alignment explanation
Indices: 10276274--10276327 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
10276264 TAATCTAATC
*
10276274 AATAAATAAT-AATAAA
1 AATAAAAAATAAATAAA
10276290 AAT-AAAAATAAAATAAA
1 AATAAAAAAT-AAATAAA
10276307 TAATAAAAAATAAATGAAA
1 -AATAAAAAATAAAT-AAA
10276326 AA
1 AA
10276328 AAACTTGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.16
16 3 0.09
17 6 0.19
18 9 0.28
19 9 0.28
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AATAAAAAATAAATAAA
Found at i:10276329 original size:27 final size:27
Alignment explanation
Indices: 10276274--10276329 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10276264 TAATCTAATC
*
10276274 AATAAATAATAATAAAAATAAAAATAA
1 AATAAATAATAATAAAAATAAAAAAAA
10276301 AATAAATAAT-A-AAAAATAAATGAAAAA
1 AATAAATAATAATAAAAATAAA--AAAAA
10276328 AA
1 AA
10276330 ACTTGGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 9 0.35
26 1 0.04
27 16 0.62
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (27 bp):
AATAAATAATAATAAAAATAAAAAAAA
Found at i:10277061 original size:17 final size:16
Alignment explanation
Indices: 10277035--10277154 Score: 64
Period size: 18 Copynumber: 7.1 Consensus size: 16
10277025 TAATTAAAAG
10277035 AAAATAATTAGATAAATA
1 AAAAT-ATTA-ATAAATA
*
10277053 AAAATATTAATAGATA
1 AAAATATTAATAAATA
*
10277069 AATAATAATTAATACATA
1 AA-AAT-ATTAATAAATA
* * * * *
10277087 CATATACTAACAGATA
1 AAAATATTAATAAATA
10277103 AATAATA--AATAAATA
1 AA-AATATTAATAAATA
10277118 AATATATATTAATAAATA
1 AA-A-ATATTAATAAATA
** *
10277136 GTAATAATAAATAAATA
1 AAAAT-ATTAATAAATA
10277153 AA
1 AA
10277155 TAAATAATAC
Statistics
Matches: 79, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
15 10 0.13
16 22 0.28
17 23 0.29
18 24 0.30
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATATTAATAAATA
Found at i:10277070 original size:20 final size:20
Alignment explanation
Indices: 10277010--10277073 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
10277000 AATCAAATAA
* *
10277010 AAAAATGTTAATAGATAATT
1 AAAAATATTAATAGATAAAT
* *
10277030 AAAAGAAAATAATTAGATAAAT
1 AAAA-ATATTAA-TAGATAAAT
10277052 AAAAATATTAATAGATAAAT
1 AAAAATATTAATAGATAAAT
10277072 AA
1 AA
10277074 TAATTAATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 15 0.42
21 9 0.25
22 12 0.33
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAAATATTAATAGATAAAT
Found at i:10277078 original size:35 final size:35
Alignment explanation
Indices: 10277037--10277163 Score: 116
Period size: 35 Copynumber: 3.6 Consensus size: 35
10277027 ATTAAAAGAA
* *
10277037 AATAATTAGATAAATAAAAATATTAATAGATAAAT
1 AATAAATAAATAAATAAAAATATTAATAGATAAAT
* * * * * *
10277072 AAT-AATTAATACATACATATACTAACAGATAAAT
1 AATAAATAAATAAATAAAAATATTAATAGATAAAT
* *
10277106 AATAAATAAATAAAT--ATATATTAATAAATAGTAAT
1 AATAAATAAATAAATAAAAATATTAATAGATA--AAT
10277141 AATAAATAAATAAATAAATAATA
1 AATAAATAAATAAATAAA-AATA
10277164 CATAAGATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
33 12 0.17
34 26 0.36
35 30 0.42
37 1 0.01
38 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (35 bp):
AATAAATAAATAAATAAAAATATTAATAGATAAAT
Found at i:10277107 original size:4 final size:4
Alignment explanation
Indices: 10277100--10277161 Score: 65
Period size: 4 Copynumber: 15.0 Consensus size: 4
10277090 ATACTAACAG
*
10277100 ATAA AT-A ATAA ATAA ATAA ATATA TATTA ATAA ATAGTA AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATA-A -ATAA ATAA ATA--A ATAA ATAA
10277146 ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA
10277162 TACATAAGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 6 0.12
4 37 0.74
5 2 0.04
6 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (4 bp):
ATAA
Found at i:10277123 original size:31 final size:31
Alignment explanation
Indices: 10277019--10277156 Score: 109
Period size: 34 Copynumber: 4.3 Consensus size: 31
10277009 AAAAAATGTT
* * *
10277019 AATAGATA-ATTAAAAGA-AAATAATTAGATA
1 AATAAATATATTAATAGATAAATAA-TAAATA
*
10277049 AATAAAAATATTAATAGATAAATAATAATTAATA
1 AATAAATATATTAATAGATAAATAAT-A--AATA
* * * *
10277083 CATACATATACTAACAGATAAATAATAAATA
1 AATAAATATATTAATAGATAAATAATAAATA
*
10277114 AATAAATATATATTAATAAATAGTAATAATAAATA
1 AAT-AA-ATATATTAATAGATA--AATAATAAATA
10277149 AATAAATA
1 AATAAATA
10277157 AATAATACAT
Statistics
Matches: 85, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
30 6 0.07
31 15 0.18
32 8 0.09
33 16 0.19
34 26 0.31
35 14 0.16
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (31 bp):
AATAAATATATTAATAGATAAATAATAAATA
Found at i:10277168 original size:7 final size:7
Alignment explanation
Indices: 10277046--10277157 Score: 58
Period size: 7 Copynumber: 16.1 Consensus size: 7
10277036 AAATAATTAG
10277046 ATAAATA
1 ATAAATA
10277053 A-AAAT-
1 ATAAATA
*
10277058 ATTAATA
1 ATAAATA
10277065 GATAAATA
1 -ATAAATA
*
10277073 ATAATTA
1 ATAAATA
*
10277080 ATACATA
1 ATAAATA
10277087 CAT--ATA
1 -ATAAATA
* *
10277093 CTAACA-G
1 ATAA-ATA
10277100 ATAAATA
1 ATAAATA
10277107 ATAAATAA
1 ATAAAT-A
10277115 ATAAAT-
1 ATAAATA
*
10277121 ATATATTA
1 ATA-AATA
10277129 ATAAATA
1 ATAAATA
*
10277136 GT-AATA
1 ATAAATA
10277142 ATAAATAA
1 ATAAAT-A
10277150 ATAAATA
1 ATAAATA
10277157 A
1 A
10277158 ATAATACATA
Statistics
Matches: 79, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
5 2 0.03
6 19 0.24
7 32 0.41
8 26 0.33
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (7 bp):
ATAAATA
Found at i:10277199 original size:22 final size:21
Alignment explanation
Indices: 10277138--10277199 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
10277128 AATAAATAGT
* *
10277138 AATAATAAAT-AAATA-AATA
1 AATAATACATAAAATATAAAA
* *
10277157 AATAATACATAAGATACAAAA
1 AATAATACATAAAATATAAAA
*
10277178 AATATATATATAAAATATAAAA
1 AATA-ATACATAAAATATAAAA
10277200 TAAAATGGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 9 0.26
20 4 0.12
21 7 0.21
22 14 0.41
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAATACATAAAATATAAAA
Found at i:10277475 original size:40 final size:44
Alignment explanation
Indices: 10277382--10277490 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 44
10277372 TTGATAAAAA
10277382 CTCCTCTAAGT-AGAGGCTCAACGACTTTGAAAAACATAAACAAAG
1 CTCCTCTAA-TCAGAGGCTCAACGACTTTG-AAAACATAAACAAAG
* * **
10277427 CTCTTCTAATCAGAGGCTCAATGACTTTG-AAA-AT-AA-ATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAACATAAACAAAG
10277467 CTCCTCTAATCAGAGGCTCAACGA
1 CTCCTCTAATCAGAGGCTCAACGA
10277491 AAGCTCCTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
40 24 0.42
41 2 0.04
42 2 0.04
43 3 0.05
44 1 0.02
45 25 0.44
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (44 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAACATAAACAAAG
Found at i:10277504 original size:27 final size:27
Alignment explanation
Indices: 10277466--10277517 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
10277456 AAAATAAATG
10277466 GCTCCTCTAATCAGAGGCTCAACGAAA
1 GCTCCTCTAATCAGAGGCTCAACGAAA
10277493 GCTCCTCTAATCAGAGGCTCAACGA
1 GCTCCTCTAATCAGAGGCTCAACGA
10277518 CGTTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (27 bp):
GCTCCTCTAATCAGAGGCTCAACGAAA
Found at i:10277632 original size:43 final size:43
Alignment explanation
Indices: 10277490--10277769 Score: 243
Period size: 43 Copynumber: 6.5 Consensus size: 43
10277480 AGGCTCAACG
* * *
10277490 AAAGCTCCTCTAATCAGAGGCTCAACGAC-GTTAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAATAAAT
* * *
10277532 AAACAAAGCTCCTCTAATCAAAGGCTTAACGAC-TTTGAAAATAAAT
1 ----AAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAATAAAT
* * * *
10277578 AAAGCTTCTCTAAATAGAGGCTCAATGACTTTTGGAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAATAAAT
* *
10277621 AAAGCTCCTCTAAACAAAGGCTCAACGACTTTTGGAAATAAATAAAC
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTT-G--A-AAATAAAT
* * ** *
10277668 AAAGCTCATCTAATCAGAGGCTCAATAACTTTTAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAATAAAT
* *
10277711 -TA-CTCCTCTAAACAGAGGCATC-ACAAC-TTTGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGC-TCAACGACTTTTGAAAATAAAT
*
10277751 --GGCTCCTCTAAACAGAGGC
1 AAAGCTCCTCTAAACAGAGGC
10277770 ATCACAACTT
Statistics
Matches: 197, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
40 29 0.15
41 19 0.10
42 26 0.13
43 48 0.24
44 2 0.01
46 38 0.19
47 35 0.18
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (43 bp):
AAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAATAAAT
Found at i:10277639 original size:85 final size:85
Alignment explanation
Indices: 10277490--10277750 Score: 253
Period size: 88 Copynumber: 3.0 Consensus size: 85
10277480 AGGCTCAACG
* ** * *
10277490 AAAGCTCCTCTAATCAGAGGCTCAACGAC-GTTAAAAATAAATAAACAAAGCTCCTCTAATCAAA
1 AAAGCTCATCTAATCAGAGGCTCAATAACTTTTAAAAATAAAT----AAAGCTCCTCTAAACAAA
10277554 GGCTTAACGACTTTGAAAATAAAT
62 GGCTTAACGACTTTGAAAATAAAT
* **
10277578 AAAGCTTC-TCTAAAT-AGAGGCTCAATGACTTTTGGAAATAAATAAAGCTCCTCTAAACAAAGG
1 AAAGC-TCATCT-AATCAGAGGCTCAATAACTTTTAAAAATAAATAAAGCTCCTCTAAACAAAGG
* *
10277641 CTCAACGACTTTTGGAAATAAATAAAC
64 CTTAACGAC-TTT-G--A-AAATAAAT
* * *
10277668 AAAGCTCATCTAATCAGAGGCTCAATAACTTTTAAAAATAAAT-TA-CTCCTCTAAACAGAGGCA
1 AAAGCTCATCTAATCAGAGGCTCAATAACTTTTAAAAATAAATAAAGCTCCTCTAAACAAAGGCT
* *
10277731 TCACAACTTTGAAAATAAAT
66 TAACGACTTTGAAAATAAAT
10277751 GGCTCCTCTA
Statistics
Matches: 146, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
83 7 0.05
84 1 0.01
85 27 0.18
86 4 0.03
87 4 0.03
88 41 0.28
89 22 0.15
90 40 0.27
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (85 bp):
AAAGCTCATCTAATCAGAGGCTCAATAACTTTTAAAAATAAATAAAGCTCCTCTAAACAAAGGCT
TAACGACTTTGAAAATAAAT
Found at i:10277728 original size:131 final size:130
Alignment explanation
Indices: 10277490--10277769 Score: 329
Period size: 131 Copynumber: 2.2 Consensus size: 130
10277480 AGGCTCAACG
* *
10277490 AAAGCTCCTCTAATCAGAGGCTCAACGACGTTAAAAATAAATAAACAAAGCTCCTCTAATCAAAG
1 AAAGCTCCTCTAAACAGAGGCTCAACGACGTTAAAAATAAATAAACAAAGCTCATCTAATCAAAG
* * * * * *
10277555 GCTTAACGACTTTGAAAATAAATAAAGCTTCTCTAAATAGAGGC-TCA-ATGACTTTTGGAAATA
66 GCTCAACAACTTTAAAAATAAATAAAGCTCCTCTAAACAGAGGCATCACA--AC-TTTGAAAATA
10277618 AAT
128 AAT
* * ** *
10277621 AAAGCTCCTCTAAACAAAGGCTCAACGACTTTTGGAAATAAATAAACAAAGCTCATCTAATCAGA
1 AAAGCTCCTCTAAACAGAGGCTCAACGAC-GTTAAAAATAAATAAACAAAGCTCATCTAATCAAA
* *
10277686 GGCTCAATAACTTTTAAAAATAAAT-TA-CTCCTCTAAACAGAGGCATCACAACTTTGAAAATAA
65 GGCTCAACAAC-TTTAAAAATAAATAAAGCTCCTCTAAACAGAGGCATCACAACTTTGAAAATAA
10277749 AT
129 AT
*
10277751 --GGCTCCTCTAAACAGAGGC
1 AAAGCTCCTCTAAACAGAGGC
10277770 ATCACAACTT
Statistics
Matches: 128, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
128 17 0.13
130 12 0.09
131 44 0.34
132 42 0.33
133 13 0.10
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (130 bp):
AAAGCTCCTCTAAACAGAGGCTCAACGACGTTAAAAATAAATAAACAAAGCTCATCTAATCAAAG
GCTCAACAACTTTAAAAATAAATAAAGCTCCTCTAAACAGAGGCATCACAACTTTGAAAATAAAT
Found at i:10277757 original size:40 final size:40
Alignment explanation
Indices: 10277671--10277785 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
10277661 AATAAACAAA
* * * * *
10277671 GCTCATCTAATCAGAGGC-TCAATAACTTTTAAAAATAAATT
1 GCTCCTCTAAACAGAGGCATC-ACAAC-TTTGAAAATAAATG
*
10277712 ACTCCTCTAAACAGAGGCATCACAACTTTGAAAATAAATG
1 GCTCCTCTAAACAGAGGCATCACAACTTTGAAAATAAATG
*
10277752 GCTCCTCTAAACAGAGGCATCACAACTTCGAAAA
1 GCTCCTCTAAACAGAGGCATCACAACTTTGAAAA
10277786 ACATATTGCC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
40 44 0.68
41 19 0.29
42 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCATCACAACTTTGAAAATAAATG
Found at i:10281251 original size:13 final size:13
Alignment explanation
Indices: 10281233--10281258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10281223 ATCTTATCTA
10281233 GATCGACTTTAAT
1 GATCGACTTTAAT
10281246 GATCGACTTTAAT
1 GATCGACTTTAAT
10281259 TCCTCTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GATCGACTTTAAT
Found at i:10289154 original size:15 final size:16
Alignment explanation
Indices: 10289131--10289163 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10289121 AAATCCAAGA
10289131 AAATAAAAATGAAAAG
1 AAATAAAAATGAAAAG
10289147 AAAT-AAAATGAAAAG
1 AAATAAAAATGAAAAG
10289162 AA
1 AA
10289164 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAATAAAAATGAAAAG
Found at i:10289169 original size:15 final size:14
Alignment explanation
Indices: 10289135--10289169 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10289125 CCAAGAAAAT
10289135 AAAAATGAAAAGAA
1 AAAAATGAAAAGAA
10289149 ATAAAATGAAAAGAA
1 A-AAAATGAAAAGAA
10289164 GAAAAA
1 -AAAAA
10289170 AAAAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 17 0.89
16 1 0.05
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (14 bp):
AAAAATGAAAAGAA
Found at i:10289392 original size:60 final size:60
Alignment explanation
Indices: 10289229--10289391 Score: 265
Period size: 59 Copynumber: 2.7 Consensus size: 60
10289219 TGCTTTTGTA
10289229 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAACAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAACAAACTTATTTT
* * *
10289289 TAAGGAAAATTGATACTTTCAACATTTCCTCAAAAATATTTTTTAGAA-AAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAACAAACTTATTTT
* * *
10289348 CAAGGAAAATTAATACTTTTAACTTTTCCTCAAAAAAATTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
10289392 TTTGGAATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 50 0.53
60 45 0.47
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAACAAACTTATTTT
Found at i:10289475 original size:18 final size:18
Alignment explanation
Indices: 10289420--10289489 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
10289410 GAAAAAAATA
*
10289420 AAAATAAAATAA-AATAAG
1 AAAAT-AAATAATAATAAT
**
10289438 AAATACTAAATAATTCTAAT
1 AAA-A-TAAATAATAATAAT
**
10289458 CTAATAAATAATAATAAT
1 AAAATAAATAATAATAAT
*
10289476 AAAATAAATTATAA
1 AAAATAAATAATAA
10289490 AAAATAAATG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 26 0.67
19 8 0.21
20 5 0.13
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAATAAATAATAATAAT
Found at i:10289497 original size:14 final size:15
Alignment explanation
Indices: 10289459--10289498 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
10289449 AATTCTAATC
*
10289459 TAAT-AAAT-AATAA
1 TAATAAAATAAATTA
10289472 TAATAAAATAAATTA
1 TAATAAAATAAATTA
10289487 TAA-AAAATAAAT
1 TAATAAAATAAAT
10289499 GAAAAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 13 0.54
15 7 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAATAAATTA
Found at i:10289955 original size:26 final size:26
Alignment explanation
Indices: 10289913--10289963 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
10289903 TGGAATATGG
*
10289913 AAATTTTCCATAAATTTTCAAAAAAAA
1 AAATTTGCCATAAA-TTTCAAAAAAAA
*
10289940 AAATTTGCCA-AAATTTCTAAAAAA
1 AAATTTGCCATAAATTTCAAAAAAA
10289964 TCCTGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTTGCCATAAATTTCAAAAAAAA
Found at i:10290307 original size:20 final size:18
Alignment explanation
Indices: 10290272--10290343 Score: 74
Period size: 17 Copynumber: 3.9 Consensus size: 18
10290262 AGAAAATAAT
*
10290272 TAGATAAATAAAAATATTTA
1 TAGATAAATAATAATA--TA
*
10290292 TAGATAAATAGTAATA-A
1 TAGATAAATAATAATATA
10290309 TAGATAAATAATAATATA
1 TAGATAAATAATAATATA
* *
10290327 TAAAAAAATAAATAATA
1 TAGATAAAT-AATAATA
10290344 ATTAATACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 16 0.36
18 8 0.18
19 7 0.16
20 14 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TAGATAAATAATAATATA
Found at i:10290320 original size:14 final size:14
Alignment explanation
Indices: 10290303--10290431 Score: 77
Period size: 14 Copynumber: 8.9 Consensus size: 14
10290293 AGATAAATAG
*
10290303 TAATAATAGATAAA
1 TAATAATAAATAAA
*
10290317 TAATAATATATAAA
1 TAATAATAAATAAA
10290331 -AA-AATAAAT-AA
1 TAATAATAAATAAA
* *
10290342 TAATTAATACATACA
1 TAA-TAATAAATAAA
10290357 TACATATACTAACAGATAAA
1 TA-ATA-A-T-A-A-ATAAA
* *
10290377 TAATAAAAAATATA
1 TAATAATAAATAAA
* *
10290391 TATTAATAAAT-AG
1 TAATAATAAATAAA
10290404 TAATAATAAATAAA
1 TAATAATAAATAAA
*
10290418 TAAATAATACATAA
1 T-AATAATAAATAA
10290432 GATACAAAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
11 2 0.02
12 8 0.09
13 12 0.14
14 34 0.39
15 17 0.19
16 3 0.03
17 1 0.01
18 2 0.02
19 3 0.03
20 6 0.07
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (14 bp):
TAATAATAAATAAA
Found at i:10290322 original size:7 final size:7
Alignment explanation
Indices: 10290303--10290431 Score: 59
Period size: 7 Copynumber: 17.4 Consensus size: 7
10290293 AGATAAATAG
10290303 TAAT-AA
1 TAATAAA
10290309 TAGATAAA
1 TA-ATAAA
10290317 TAAT-AA
1 TAATAAA
10290323 TATATAAAA
1 TA-AT-AAA
*
10290332 AAATAAA
1 TAATAAA
*
10290339 TAATAAT
1 TAATAAA
*
10290346 TAATACA
1 TAATAAA
10290353 TACATACATA
1 TA-ATA-A-A
*
10290363 TACTAACA
1 TAATAA-A
*
10290371 -GATAAA
1 TAATAAA
10290377 TAATAAA
1 TAATAAA
*
10290384 AAATATATA
1 TAATA-A-A
10290393 TTAATAAA
1 -TAATAAA
*
10290401 TAGT-AA
1 TAATAAA
10290407 TAATAAA
1 TAATAAA
10290414 TAAATAAA
1 T-AATAAA
*
10290422 TAATACA
1 TAATAAA
10290429 TAA
1 TAA
10290432 GATACAAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
6 12 0.13
7 47 0.51
8 20 0.22
9 7 0.08
10 7 0.08
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:10290447 original size:25 final size:26
Alignment explanation
Indices: 10290411--10290474 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
10290401 TAGTAATAAT
*
10290411 AAATAAATAAATAATACATAAGATACA
1 AAATAAA-AAATAATACATAAAATACA
* *
10290438 AAA-AAGAAAT-ATATATAAAATACA
1 AAATAAAAAATAATACATAAAATACA
10290462 AAATAAAAAATAA
1 AAATAAAAAATAA
10290475 AATGGGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 15 0.48
25 10 0.32
26 3 0.10
27 3 0.10
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (26 bp):
AAATAAAAAATAATACATAAAATACA
Found at i:10291020 original size:12 final size:12
Alignment explanation
Indices: 10290988--10291021 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10290978 GAAGATGGAT
10290988 AGGAAAAGGAAAA
1 AGGAAAA-GAAAA
10291001 A-GAAAAGAAAA
1 AGGAAAAGAAAA
10291012 AGGAAAAGAA
1 AGGAAAAGAA
10291022 GCTGTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 13 0.65
13 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGGAAAAGAAAA
Found at i:10291090 original size:25 final size:25
Alignment explanation
Indices: 10291029--10291090 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
10291019 GAAGCTGTTG
* *
10291029 AAAGGGAAAAATGAGGAAATTACTA
1 AAAGGGAAAAAGGAGGAAACTACTA
** *
10291054 AAAAAGAGAAAGGA-GAAAGCTACTA
1 AAAGGGAAAAAGGAGGAAA-CTACTA
10291079 AAAGGGAAAAAG
1 AAAGGGAAAAAG
10291091 AAAGAAAGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.60, C:0.05, G:0.26, T:0.10
Consensus pattern (25 bp):
AAAGGGAAAAAGGAGGAAACTACTA
Found at i:10296683 original size:21 final size:21
Alignment explanation
Indices: 10296659--10296698 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10296649 AATGTTCTAC
10296659 TTTTTAAAATATTAAATTTAA
1 TTTTTAAAATATTAAATTTAA
** *
10296680 TTTTTTCAATATTTAATTT
1 TTTTTAAAATATTAAATTT
10296699 TTTAAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTAAAATATTAAATTTAA
Found at i:10296695 original size:16 final size:16
Alignment explanation
Indices: 10296674--10296706 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10296664 AAAATATTAA
*
10296674 ATTTAATTTTTTCAAT
1 ATTTAATTTTTTAAAT
10296690 ATTTAATTTTTTAAAT
1 ATTTAATTTTTTAAAT
10296706 A
1 A
10296707 AAAGTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAATTTTTTAAAT
Found at i:10297103 original size:29 final size:28
Alignment explanation
Indices: 10297041--10297110 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
10297031 AAAAATGTAC
* *
10297041 AAAAATTTAAAAATTTATAAAGACTTTTT
1 AAAAATAT-AAAATTTATAAAGAATTTTT
*
10297070 TAAAATATAAAATCTTATAAA-AATTTTCT
1 AAAAATATAAAAT-TTATAAAGAATTTT-T
*
10297099 AAAAACATAAAA
1 AAAAATATAAAA
10297111 ATTGAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAAATATAAAATTTATAAAGAATTTTT
Found at i:10301452 original size:2 final size:2
Alignment explanation
Indices: 10301445--10301473 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10301435 CTTGAAATCT
10301445 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10301474 AAAGCCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10302828 original size:24 final size:22
Alignment explanation
Indices: 10302797--10302883 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 22
10302787 TCATCTATTA
10302797 TTAAAACTTATTTTGTTATATAT
1 TTAAAACTT-TTTTGTTATATAT
*
10302820 TTAATAACTTTTTTATCTAT-TAAT
1 TTAA-AACTTTTTTGT-TATAT-AT
10302844 CTCCTAAAACTTCTTTTGTTATATAT
1 -T--TAAAACTT-TTTTGTTATATAT
*
10302870 GTAATAACTTTTTT
1 TTAA-AACTTTTTT
10302884 ACCTATTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
23 17 0.33
24 15 0.29
25 1 0.02
26 10 0.19
27 9 0.17
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.55
Consensus pattern (22 bp):
TTAAAACTTTTTTGTTATATAT
Found at i:10302852 original size:50 final size:50
Alignment explanation
Indices: 10302798--10302899 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
10302788 CATCTATTAT
* *
10302798 TAAAACTTATTTTGTTATATATTTAATAACTTTTTTATCTATTAATCTCC
1 TAAAACTTATTTTGTTATATATGTAATAACTTTTTTACCTATTAATCTCC
*
10302848 TAAAACTTCTTTTGTTATATATGTAATAACTTTTTTACCTATTAATCTCC
1 TAAAACTTATTTTGTTATATATGTAATAACTTTTTTACCTATTAATCTCC
10302898 TA
1 TA
10302900 TAAATTGACA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.52
Consensus pattern (50 bp):
TAAAACTTATTTTGTTATATATGTAATAACTTTTTTACCTATTAATCTCC
Found at i:10302854 original size:26 final size:27
Alignment explanation
Indices: 10302821--10302899 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 27
10302811 GTTATATATT
10302821 TAATAACTTTTTTATCTATTAATCTCC
1 TAATAACTTTTTTATCTATTAATCTCC
* * *
10302848 TAA-AACTTCTTTTGT-TA-T-ATAT-G
1 TAATAACTT-TTTTATCTATTAATCTCC
*
10302871 TAATAACTTTTTTACCTATTAATCTCC
1 TAATAACTTTTTTATCTATTAATCTCC
10302898 TA
1 TA
10302900 TAAATTGACA
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
23 7 0.18
24 10 0.26
25 2 0.05
26 10 0.26
27 10 0.26
ACGTcount: A:0.30, C:0.16, G:0.03, T:0.51
Consensus pattern (27 bp):
TAATAACTTTTTTATCTATTAATCTCC
Found at i:10304786 original size:2 final size:2
Alignment explanation
Indices: 10304779--10304810 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10304769 AATTGGATTT
10304779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10304811 AAGATATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10311138 original size:27 final size:27
Alignment explanation
Indices: 10311108--10311163 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
10311098 CTTATTAAAG
*
10311108 TTTATCACAAATATGATAAATTTTAGA
1 TTTATCACAAATATGATAAATCTTAGA
** *
10311135 TTTATCACATGTATGTTAAATCTTAGA
1 TTTATCACAAATATGATAAATCTTAGA
10311162 TT
1 TT
10311164 GTCTGTTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (27 bp):
TTTATCACAAATATGATAAATCTTAGA
Found at i:10313344 original size:21 final size:21
Alignment explanation
Indices: 10313296--10313348 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
10313286 TAGCCTTTTT
*
10313296 TTAAAATTAAAGTTATTAAAA
1 TTAAAATTTAAGTTATTAAAA
* *
10313317 TTTAAATTTAA-TTATTGAAA
1 TTAAAATTTAAGTTATTAAAA
10313337 TTAAAAATTTAA
1 TT-AAAATTTAA
10313349 CATTCTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
TTAAAATTTAAGTTATTAAAA
Found at i:10321031 original size:33 final size:34
Alignment explanation
Indices: 10320973--10321046 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
10320963 CTCGAAGATG
10320973 TATTTTCGAGAATTACATTGCATTCCC-ATAAATT
1 TATTTTCGAGAATTACATTGCATTCCCGA-AAATT
*
10321007 TATTTTCGAG-ATTACATTGTATTCCCGAAAATT
1 TATTTTCGAGAATTACATTGCATTCCCGAAAATT
10321040 TATTTTC
1 TATTTTC
10321047 AAAAATACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 27 0.71
34 11 0.29
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (34 bp):
TATTTTCGAGAATTACATTGCATTCCCGAAAATT
Found at i:10321056 original size:33 final size:33
Alignment explanation
Indices: 10320915--10321056 Score: 99
Period size: 34 Copynumber: 4.2 Consensus size: 33
10320905 GATCTTCGAC
** * *
10320915 AATTACATTGTATT-CTAAACAATTTGTTTTAAAA
1 AATTACATTGTATTCCCGAA-AATTTATTTT-CAA
* * * * * * *
10320949 AATTATAATATATTCTCGAAGATGTATTTTCGAG
1 AATTACATTGTATTCCCGAAAATTTATTTTC-AA
* *
10320983 AATTACATTGCATTCCC-ATAAATTTATTTTCGA
1 AATTACATTGTATTCCCGA-AAATTTATTTTCAA
*
10321016 GATTACATTGTATTCCCGAAAATTTATTTTCAA
1 AATTACATTGTATTCCCGAAAATTTATTTTCAA
*
10321049 AAATACAT
1 AATTACAT
10321057 CATAATTCTT
Statistics
Matches: 79, Mismatches: 25, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
33 35 0.44
34 42 0.53
35 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (33 bp):
AATTACATTGTATTCCCGAAAATTTATTTTCAA
Found at i:10321079 original size:34 final size:34
Alignment explanation
Indices: 10321035--10321099 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
10321025 GTATTCCCGA
*
10321035 AAATTTATTTTCAAAAATACATCATAATTCTTTT
1 AAATATATTTTCAAAAATACATCATAATTCTTTT
** * *
10321069 AAATATATTTTTGAGAATACATTATAATTCT
1 AAATATATTTTCAAAAATACATCATAATTCT
10321100 CGAAATTCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (34 bp):
AAATATATTTTCAAAAATACATCATAATTCTTTT
Found at i:10321264 original size:21 final size:20
Alignment explanation
Indices: 10321226--10321264 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10321216 TAACTAAAGT
* *
10321226 TTTAAAATTTGAGTTTTAGC
1 TTTAAAATTTAAGATTTAGC
10321246 TTTAAAGATTTAAGATTTA
1 TTTAAA-ATTTAAGATTTA
10321265 ATGTATACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTAAAATTTAAGATTTAGC
Found at i:10325417 original size:238 final size:235
Alignment explanation
Indices: 10324972--10325418 Score: 577
Period size: 238 Copynumber: 1.9 Consensus size: 235
10324962 TTATTGAAAT
* *
10324972 TTTGAAGAAAAAGGAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACGCTGGTAATA
1 TTTGAAGAAAAAGAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTGGTAATA
* * *
10325037 TTTTATAAAAAATCTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAAT
66 TTTTACAAAAAATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAAT
* * *
10325102 CCCATCACTGGATTAAATTTTTTTTCTTCTCATTTTTGTTACTTATTTTTAATATATTAATCAAT
131 CCCATCACTGGATAAAATTTTTTTTC-TCTCACTTTTGTTACTTATTTGTAATATATTAATCAAT
10325167 TTTTATTTATTATTCTAAAAAAAGAAATTTTTATTTAAAAA
195 TTTTATTTATTATTCTAAAAAAAGAAATTTTTATTTAAAAA
* *
10325208 TTTGAAGAAAAATGAAAATTTTATTATATTGAAGATTTTCTATAAATATTTCAATACACTGGTAA
1 TTTGAAGAAAAA-G-AAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTGGTAA
* *
10325273 TATTTTACAAAAAATCTTCTCATCTAGAGATTTCGT-AGGCATCACTACTCGGAATA-TCTTT-G
64 TATTTTACAAAAAATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACT-TTTAG
* * *
10325335 AATCTCATC-GTCGGATAAAAATTTCTTTTTC-CT-ACTTTT-TTA-TTAGTTTAGTATTATTAT
128 AATCCCATCACT-GGAT-AAAATTT-TTTTTCTCTCACTTTTGTTACTTA-TTT-GTAATA-TAT
**
10325395 TAAATTTATTTTTATATTATTATT
187 T-AATCAATTTTTAT-TTATTATT
10325419 TTTAAAGTTT
Statistics
Matches: 183, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
233 3 0.02
234 6 0.03
235 10 0.05
236 32 0.17
237 39 0.21
238 93 0.51
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (235 bp):
TTTGAAGAAAAAGAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTGGTAATA
TTTTACAAAAAATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAAT
CCCATCACTGGATAAAATTTTTTTTCTCTCACTTTTGTTACTTATTTGTAATATATTAATCAATT
TTTATTTATTATTCTAAAAAAAGAAATTTTTATTTAAAAA
Found at i:10326672 original size:34 final size:33
Alignment explanation
Indices: 10326605--10326672 Score: 77
Period size: 34 Copynumber: 2.0 Consensus size: 33
10326595 CTTTTTTTTC
**
10326605 TTTTTTTTTGTATTTTTATATATTATTTCATAT
1 TTTTTTTTTGTATTTTTATATATTATACCATAT
10326638 TTTTTTTATTGTATTTTGTAT-T-TTATACCTATAT
1 TTTTTTT-TTGTATTTT-TATATATTATACC-ATAT
10326672 T
1 T
10326673 ACGTATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
33 12 0.40
34 15 0.50
35 3 0.10
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (33 bp):
TTTTTTTTTGTATTTTTATATATTATACCATAT
Found at i:10326983 original size:97 final size:95
Alignment explanation
Indices: 10326824--10327332 Score: 646
Period size: 97 Copynumber: 5.3 Consensus size: 95
10326814 CCTCTCATTT
* * * * *
10326824 GAGGCTCGACAACTTTAAAAATTTTATCTTG-AAAAGGGCTCATCTCAGCAGAGGCTCTACAACT
1 GAGGCTCAACAACTTT-AAAATCTCAT-TTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACT
* *
10326888 TTAAAAATCTCTTTTGAAAAAGCTCATTTCAGCA
64 TT-AAAATTTCATTTGAAAAAGCTC-TTTCAGCA
* * *
10326922 GAGGCTTAACAACTTTAAAATCTCATTTGAAAAAGGGCTTCTCTCTGCAGAGGCTCAACAACTTT
1 GAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTT
*
10326987 AAAATTTCATTTGAAAAAGGGTTCTTCTCAGCA
66 AAAATTTCATTTGAAAAA--GCTCTT-TCAGCA
** * *
10327020 GATACTCAACAACTTTAAAATCTCATTTGAAAAAGGACTCCTCTCAGCAGATGCTCAACAACTTT
1 GAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTT
* *
10327085 AAAATTTCATTTGAAAAAGCTCCTCTCAGTA
66 AAAATTTCATTTGAAAAAGCT-CTTTCAGCA
* *
10327116 GAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCCTCTCAACAAAGGCTCAACAACTT
1 GAGGCTCAACAACTTTAAAATCTCAT-TTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTT
* *
10327181 TAAAATTTCATTTGAAAAAGTTTCTCTCAGCA
65 TAAAATTTCATTTGAAAAAG-CTCTTTCAGCA
* ** *
10327213 GAAGCTCAACAACTTTAAAATCTCATTT-AAAAA-GGCTCCTCTCAATAGAGGCTCAATAACTTT
1 GAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTT
* *
10327276 AAAATTTTATTTGAAAAAGCTCTTCTCAGTA
66 AAAATTTCATTTGAAAAAGCTCTT-TCAGCA
*
10327307 GAGGCTCAACAATTTTAAAATCTCAT
1 GAGGCTCAACAACTTTAAAATCTCAT
10327333 CTTCTCTTAA
Statistics
Matches: 364, Mismatches: 39, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
93 3 0.01
94 74 0.20
95 5 0.01
96 52 0.14
97 130 0.36
98 100 0.27
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (95 bp):
GAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTT
AAAATTTCATTTGAAAAAGCTCTTTCAGCA
Found at i:10327126 original size:47 final size:47
Alignment explanation
Indices: 10326803--10327332 Score: 585
Period size: 47 Copynumber: 11.0 Consensus size: 47
10326793 TTTTTTTTAA
* *** * * *
10326803 TTGAAAATGCTCCTCTCATTTGAGGCTCGACAACTTTAAAAATTTTAT
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT
* * * *
10326851 CTTGAAAAGGGCTCATCTCAGCAGAGGCTCTACAACTTTAAAAATCTCTT
1 -TTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT
* * *
10326901 TTGAAAAAGCTCATTTCAGCAGAGGCTTAACAACTTTAAAATCTCAT
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
* * *
10326948 TTGAAAAAGGGCTTCTCTCTGCAGAGGCTCAACAACTTTAAAATTTCAT
1 TTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
* * **
10326997 TTGAAAAAGGGTTCTTCTCAGCAGATACTCAACAACTTTAAAATCTCAT
1 TTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
* *
10327046 TTGAAAAAGGACTCCTCTCAGCAGATGCTCAACAACTTTAAAATTTCAT
1 TTGAAAAA-G-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
*
10327095 TTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCAT
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
* * *
10327142 CTTGAAAAAGGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATTTCAT
1 -TTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
* * *
10327192 TTGAAAAAGTTTCTCTCAGCAGAAGCTCAACAACTTTAAAATCTCAT
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
** * * *
10327239 TT-AAAAAGGCTCCTCTCAATAGAGGCTCAATAACTTTAAAATTTTAT
1 TTGAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
* * *
10327286 TTGAAAAAGCTCTTCTCAGTAGAGGCTCAACAATTTTAAAATCTCAT
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
10327333 CTTCTCTTAA
Statistics
Matches: 414, Mismatches: 58, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
46 5 0.01
47 153 0.37
48 42 0.10
49 147 0.36
50 67 0.16
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (47 bp):
TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
Found at i:10327388 original size:191 final size:191
Alignment explanation
Indices: 10326832--10327335 Score: 617
Period size: 195 Copynumber: 2.6 Consensus size: 191
10326822 TTGAGGCTCG
* * * * * *
10326832 ACAACTTTAAAAATTTTATCTTG-AAAAGGGCTCATCTCAGCAGAGGCTCTACAACTTTAAAAAT
1 ACAACTTT-AAAATCTCAT-TTGAAAAAGGACTCCTCTCAACAGAGGCTCAACAACTTT-AAAAT
* * * * * * *
10326896 CTCTTTTGAAAAAGCTCATTTCAGCAGAGGCTTAACAACTTTAAAATCTCAT-TTGAAAAAGGGC
63 TTCATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGAG-
* * *
10326960 TTCTCTCTGCAGAGGCTCAACAACTTTAAAATTTCATTTGAAAAAGGGTTCTTCTCAGCAGATAC
127 --CTCTCTACAAAGGCTCAACAAC-GTAAAATTTCATTTGAAAAAGGGTTCTTCTCAGCAGATAC
10327025 TCA
189 TCA
* *
10327028 ACAACTTTAAAATCTCATTTGAAAAAGGACTCCTCTCAGCAGATGCTCAACAACTTTAAAATTTC
1 ACAACTTTAAAATCTCATTTGAAAAAGGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
*
10327093 ATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGGCTCC
66 ATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGAGCT-C
* *
10327158 TCTCAACAAAGGCTCAACAACTTTAAAATTTCATTTGAAAAA-GTTTC-TCTCAGCAGA-AGCTC
130 TCT--ACAAAGGCTCAACAAC-GTAAAATTTCATTTGAAAAAGGGTTCTTCTCAGCAGATA-CTC
10327220 A
191 A
* * *
10327221 ACAACTTTAAAATCTCATTT-AAAAAGG-CTCCTCTCAATAGAGGCTCAATAACTTTAAAATTTT
1 ACAACTTTAAAATCTCATTTGAAAAAGGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
* *
10327284 ATTTGAAAAAGCTCTTCTCAGTAGAGGCTCAACAATTTTAAAATCTCATCTT
66 ATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTT
10327336 CTCTTAAAAC
Statistics
Matches: 280, Mismatches: 22, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
191 81 0.29
192 10 0.04
193 38 0.14
194 58 0.21
195 85 0.30
196 8 0.03
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (191 bp):
ACAACTTTAAAATCTCATTTGAAAAAGGACTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC
ATTTGAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGAGCTCT
CTACAAAGGCTCAACAACGTAAAATTTCATTTGAAAAAGGGTTCTTCTCAGCAGATACTCA
Found at i:10340291 original size:22 final size:22
Alignment explanation
Indices: 10340256--10340298 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10340246 ATGTGTGTGA
10340256 ATTTTTTTGCTTTTTATTTTTG
1 ATTTTTTTGCTTTTTATTTTTG
*
10340278 ATTTGTTTTG-TTTTTTTTTTT
1 ATTT-TTTTGCTTTTTATTTTT
10340299 ACCTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.81
Consensus pattern (22 bp):
ATTTTTTTGCTTTTTATTTTTG
Found at i:10341539 original size:235 final size:234
Alignment explanation
Indices: 10341058--10341516 Score: 508
Period size: 235 Copynumber: 2.0 Consensus size: 234
10341048 ATTTCGAAGA
* *
10341058 AAAAAGAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACGCTGATAATATTTTATAA
1 AAAAA-AATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTGATAATATTTTACAA
* ** * *
10341123 AAAATTTCTCACCTAGAGATTTCTTAAAGCATTTCTACTCGGAATACTTTTAGAATCCCATCATT
65 AAAATTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCCCATCATC
* * * *
10341188 GGATTAAATTTCTTTTCTTCTCATTTTTATTACTTATTTTTAATTTATTAATCAATTTTTATTTA
130 GGATAAAATTTCTTTTC-TCTCATTTTTATTACTTAGTATTAATTTATTAATCAATTTTCATTTA
* *
10341253 TTATTTTAAAAAAGAAATTTTTATTTAAAAATTTGAAGAAAAAT
194 TTATTTT---AAAGAAATTTATATTTAAAAATTTGAACAAAAAT
* * *
10341297 --GAAAATTT-ATTATATTGAAGATTTTCTATAAATATTTCAATACACTGGTAATATTTTACAAA
1 AAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTGATAATATTTTACAAA
* * *
10341359 AAATCTTCTCACCTAGAGATTTCGT-AAGCATCACTACTTGGAATACCTTT-GAATCTCATCGTC
66 AAAT-TTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCCCATCATC
* **
10341422 GGATAAAAATTTCCTTTTC-CTACATTTTTTATTAGTTTAGTATT-A-TTATTAAATTTATTTTC
130 GGAT-AAAATTT-CTTTTCTCT-CA-TTTTTATTA-CTTAGTATTAATTTATT-AATCAATTTTC
* *
10341484 ATATTATTGTTTT-TA-AAATTTAT-TTTAAAAATT
189 AT-TTATTATTTTAAAGAAATTTATATTTAAAAATT
10341517 AACATAATTA
Statistics
Matches: 189, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
231 10 0.05
232 7 0.04
233 1 0.01
234 16 0.08
235 88 0.47
236 50 0.26
237 17 0.09
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (234 bp):
AAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTCCAATACACTGATAATATTTTACAAA
AAATTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAATCCCATCATCG
GATAAAATTTCTTTTCTCTCATTTTTATTACTTAGTATTAATTTATTAATCAATTTTCATTTATT
ATTTTAAAGAAATTTATATTTAAAAATTTGAACAAAAAT
Found at i:10342667 original size:18 final size:18
Alignment explanation
Indices: 10342644--10342690 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
10342634 TTTTTTTGGT
10342644 ATTTTTATATAT-TAGTTC
1 ATTTTTATAT-TGTAGTTC
* *
10342662 ATTTTTTTATTGTATTTC
1 ATTTTTATATTGTAGTTC
10342680 ATATTTTATAT
1 AT-TTTTATAT
10342691 CTATATTACG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 16 0.67
19 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (18 bp):
ATTTTTATATTGTAGTTC
Found at i:10343429 original size:14 final size:15
Alignment explanation
Indices: 10343398--10343432 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10343388 AGTATTTCGA
*
10343398 AATTTTATTTTTTAT
1 AATTTGATTTTTTAT
10343413 AATTTGATTTTTT-T
1 AATTTGATTTTTTAT
10343427 AATTTG
1 AATTTG
10343433 GCTCGCGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
AATTTGATTTTTTAT
Found at i:10343893 original size:72 final size:72
Alignment explanation
Indices: 10343816--10343955 Score: 174
Period size: 72 Copynumber: 1.9 Consensus size: 72
10343806 GTAGTCGATG
** * * * * * *
10343816 TTGAAA-TTATATTTTTGAAATTATGAAATTTTAATAAAAACCGCATTTTTAAGATAATAAACCT
1 TTGAAACTT-TATTTTAAAAATTATAAAATTTTAACAAAAACCACATTTTGAAGATAAAAAACAT
10343880 AGTGAATA
65 AGTGAATA
* *
10343888 TTGAAACTTTATTTTAAAAATTCTAAAATTTTAACAAAAACCATATTTTGAAGATAAAAAACATA
1 TTGAAACTTTATTTTAAAAATTATAAAATTTTAACAAAAACCACATTTTGAAGATAAAAAACATA
10343953 GTG
66 GTG
10343956 GATGTTACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 55 0.96
73 2 0.04
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (72 bp):
TTGAAACTTTATTTTAAAAATTATAAAATTTTAACAAAAACCACATTTTGAAGATAAAAAACATA
GTGAATA
Found at i:10348146 original size:27 final size:27
Alignment explanation
Indices: 10348108--10348166 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
10348098 TTTTTTCAAT
10348108 ACCAAAGCAAGAAATCA-AAGAACACAA
1 ACCAAAGCAAGAAATCAGAA-AACACAA
* *
10348135 ACCAAAGCAAGAAGTCAGAAAACAGAA
1 ACCAAAGCAAGAAATCAGAAAACACAA
10348162 ACCAA
1 ACCAA
10348167 TCTCAGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.61, C:0.22, G:0.14, T:0.03
Consensus pattern (27 bp):
ACCAAAGCAAGAAATCAGAAAACACAA
Found at i:10359442 original size:16 final size:17
Alignment explanation
Indices: 10359416--10359457 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
10359406 CATACATTAA
*
10359416 TTTTTATTTTTTAT-TTT
1 TTTTTA-TTTTTATGTGT
10359433 TTTTTA-TTTTATGTGT
1 TTTTTATTTTTATGTGT
10359449 TTTTTATTT
1 TTTTTATTT
10359458 AAAAGTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 8 0.36
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (17 bp):
TTTTTATTTTTATGTGT
Found at i:10359522 original size:7 final size:7
Alignment explanation
Indices: 10359510--10359535 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10359500 GAAAAATCTT
10359510 TAAAATA
1 TAAAATA
10359517 TAAAATA
1 TAAAATA
10359524 TAAAATA
1 TAAAATA
10359531 TAAAA
1 TAAAA
10359536 AAGAAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:10359891 original size:26 final size:27
Alignment explanation
Indices: 10359860--10359919 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
10359850 AAAAAATACA
* * *
10359860 AAAAAAAAAAAAAACACACAT-AAAAG
1 AAAAAAAAAAAAAACAAAAATCAAAAC
* *
10359886 AAAAAAATAGAAAACAAAAATCAAAAC
1 AAAAAAAAAAAAAACAAAAATCAAAAC
10359913 AAAAAAA
1 AAAAAAA
10359920 CCTACCTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (27 bp):
AAAAAAAAAAAAAACAAAAATCAAAAC
Found at i:10361302 original size:31 final size:32
Alignment explanation
Indices: 10361244--10361321 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 32
10361234 CTCAATTAAA
*
10361244 AAATAAATAACAAAAAATAGAAAAATCAAATC
1 AAATAAAAAACAAAAAATAGAAAAATCAAATC
10361276 AAATAAAAAACCAAAAAA-A-AAAAATCAAATC
1 AAATAAAAAA-CAAAAAATAGAAAAATCAAATC
10361307 AAATAAAAAACAAAA
1 AAATAAAAAACAAAA
10361322 GGTAAAAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 5 0.11
31 22 0.50
32 10 0.23
33 7 0.16
ACGTcount: A:0.77, C:0.10, G:0.01, T:0.12
Consensus pattern (32 bp):
AAATAAAAAACAAAAAATAGAAAAATCAAATC
Found at i:10361828 original size:24 final size:24
Alignment explanation
Indices: 10361782--10361828 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10361772 TAACAAATCT
* *
10361782 CAAAATCAAACCAAAAATAAAAAC
1 CAAAATCAAACAAAAAACAAAAAC
* *
10361806 CAAAATCAAATAAAAAACCAAAA
1 CAAAATCAAACAAAAAACAAAAA
10361829 GATTTCCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (24 bp):
CAAAATCAAACAAAAAACAAAAAC
Found at i:10363923 original size:2 final size:2
Alignment explanation
Indices: 10363916--10363940 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10363906 TTTAAGACTT
10363916 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 T
10363941 TATTTTTTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10371533 original size:51 final size:50
Alignment explanation
Indices: 10371457--10371552 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 50
10371447 AAAAGATTTT
* *
10371457 AAATGGCTCTTCTAAGCAGATGCTTAAAAACTTTAAAAACTTTAATTATG
1 AAATGGCTCTTCTAAACAGAGGCTTAAAAACTTTAAAAACTTTAATTATG
* *
10371507 AAATGGGCTCCTT-TAAACAGAGGCTTAACAACTTTAAATACTTTAA
1 AAAT-GGCT-CTTCTAAACAGAGGCTTAAAAACTTTAAAAACTTTAA
10371553 AAGTGTTTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 4 0.10
51 33 0.82
52 3 0.08
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (50 bp):
AAATGGCTCTTCTAAACAGAGGCTTAAAAACTTTAAAAACTTTAATTATG
Found at i:10381432 original size:15 final size:15
Alignment explanation
Indices: 10381407--10381462 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
10381397 TATTTTTGAG
*
10381407 AAAAATCAATTAAA-
1 AAAAATAAATTAAAC
10381421 AATAAATAAATTTAAAC
1 AA-AAATAAA-TTAAAC
*
10381438 AAAAATAAATTAAATA
1 AAAAATAAATTAAA-C
10381454 AAAAATAAA
1 AAAAATAAA
10381463 AAAAGCCCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 21 0.58
17 2 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAAATTAAAC
Found at i:10384908 original size:38 final size:38
Alignment explanation
Indices: 10384827--10384912 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 38
10384817 TTGCATTGTG
* * * * **
10384827 GAGGCATGTAGAGCCATGTTTGGTTTTGAATGCTTTTT
1 GAGGCATGTGGAACCATGTTTGGGTTTGAATACACTTT
* *
10384865 TAGGCATGTGGAACCATGTTTGGGTTTGATTACACTTT
1 GAGGCATGTGGAACCATGTTTGGGTTTGAATACACTTT
10384903 GAGGCATGTG
1 GAGGCATGTG
10384913 TATTGAATTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (38 bp):
GAGGCATGTGGAACCATGTTTGGGTTTGAATACACTTT
Found at i:10388525 original size:27 final size:27
Alignment explanation
Indices: 10388489--10388558 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
10388479 TTGTAGACCT
*
10388489 CTTTAACCTTTTGGACCTTAT-AAACC
1 CTTTCACCTTTTGGACCTTATGAAACC
* *
10388515 CTTTCCACCTTTTGGACCTTATGGACCC
1 CTTT-CACCTTTTGGACCTTATGAAACC
10388543 CTTTCACCTTTTGGAC
1 CTTTCACCTTTTGGAC
10388559 TTGCAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.10
27 28 0.72
28 7 0.18
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (27 bp):
CTTTCACCTTTTGGACCTTATGAAACC
Found at i:10389387 original size:3 final size:3
Alignment explanation
Indices: 10389366--10389598 Score: 124
Period size: 3 Copynumber: 81.7 Consensus size: 3
10389356 GGGTCGATTT
* * * *
10389366 TTA TTA CTA TTA CTA TTA TTA TTC TT- GTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
10389411 -TA TTA -TA CTA TTA TTA -TA TTA -TA GTA -TA GTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
10389452 TT- TTA TTA TT- TTA TGA TATA GTA -TA GTA TGGTA -TA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T--TA TTA TTA TTA TTA
* * * * * *
10389495 TTA TTA -TA TTA -TA TTT TTA TTT TTA TTC TCA CTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
10389541 TTA TTA TTA TATA GTA TAA TATA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
10389587 TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TT
10389599 TTTACTTTTA
Statistics
Matches: 178, Mismatches: 28, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
2 35 0.20
3 133 0.75
4 8 0.04
5 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10389405 original size:18 final size:17
Alignment explanation
Indices: 10389379--10389598 Score: 148
Period size: 16 Copynumber: 12.6 Consensus size: 17
10389369 TTACTATTAC
* *
10389379 TATTATTATTCTTGTAT
1 TATTATTATTATTATAT
10389396 TATTATTTATTATTATAT
1 TATTA-TTATTATTATAT
*
10389414 TA-TACTATTATTATAT
1 TATTATTATTATTATAT
10389430 TA-TAGTATAGTATATTATAT
1 TATTA-T-TA-T-TATTATAT
*
10389450 TATT-TTATTATTTTAT
1 TATTATTATTATTATAT
* *
10389466 GATATAGTATAGTATGGTATAT
1 TAT-TA-T-TATTAT--TATAT
10389488 TATTA-TATTATTATAT
1 TATTATTATTATTATAT
* *
10389504 TA-TATTTTTATTTTTAT
1 TATTATTATTA-TTATAT
* * *
10389521 TCTCACTATTATTACTAT
1 TATTATTATTATTA-TAT
*
10389539 TATTATTATTA-TATAG
1 TATTATTATTATTATAT
*
10389555 TATAATATATTATTATAT
1 TATTAT-TATTATTATAT
*
10389573 TATTATTATTATTATTT
1 TATTATTATTATTATAT
10389590 TATT-TTATT
1 TATTATTATT
10389599 TTTACTTTTA
Statistics
Matches: 160, Mismatches: 25, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
15 2 0.01
16 47 0.29
17 38 0.24
18 46 0.29
19 3 0.02
20 15 0.09
21 3 0.02
22 6 0.04
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (17 bp):
TATTATTATTATTATAT
Found at i:10389414 original size:8 final size:8
Alignment explanation
Indices: 10389396--10389598 Score: 117
Period size: 8 Copynumber: 23.5 Consensus size: 8
10389386 ATTCTTGTAT
10389396 TATTATT-
1 TATTATTA
10389403 TATTATTA
1 TATTATTA
10389411 TATTA-TA
1 TATTATTA
10389418 CTATTATTA
1 -TATTATTA
10389427 TATTATAGTA
1 TATTAT--TA
10389437 TAGTATATTA
1 TA-T-TATTA
*
10389447 TATTATTT
1 TATTATTA
10389455 TATTATTTTA
1 TATTA--TTA
*
10389465 TGATATAGTA
1 T-AT-TATTA
*
10389475 TAGTATGGTA
1 TATTAT--TA
10389485 TATTATTA
1 TATTATTA
10389493 TATTATTA
1 TATTATTA
10389501 TATTA-TA
1 TATTATTA
* *
10389508 TTTTTATTTT
1 -TATTA-TTA
* *
10389518 TATTCTCA
1 TATTATTA
10389526 CTATTATTA
1 -TATTATTA
10389535 CTATTATTA
1 -TATTATTA
10389544 TTATTA-TA
1 -TATTATTA
*
10389552 TAGTATAATA
1 TA-T-TATTA
10389562 TATTATTA
1 TATTATTA
10389570 TATTATTA
1 TATTATTA
10389578 TTATTATTA
1 -TATTATTA
* *
10389587 TTTTATTT
1 TATTATTA
10389595 TATT
1 TATT
10389599 TTTACTTTTA
Statistics
Matches: 156, Mismatches: 19, Indels: 41
0.72 0.09 0.19
Matches are distributed among these distances:
7 13 0.08
8 71 0.46
9 38 0.24
10 26 0.17
11 3 0.02
12 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:10389416 original size:5 final size:5
Alignment explanation
Indices: 10389396--10389597 Score: 84
Period size: 5 Copynumber: 40.2 Consensus size: 5
10389386 ATTCTTGTAT
* * *
10389396 TATTA T-TTA TTATTA TATTA TACTA TTATTA TATTA TAGTA TAGTA TATTA
1 TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA
* * * **
10389447 TATTA T-TT- TATTA TTTTA TGA-TA TAGTA TAGTA TGGTA TATTA T-TATA
1 TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA TAT-TA
* * *
10389495 TTATTA TATTA TATT- T-TTA T-TTT TATTC TCACTA TTATTA CTATTA
1 -TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA -TATTA -TATTA
* *
10389541 TTATTA T-TATA TAGTA TAATA TA-T- TATTA TATTA TTATTA TTATTA
1 -TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA
* *
10389587 TTTTA TTTTA T
1 TATTA TATTA T
10389598 TTTTACTTTT
Statistics
Matches: 159, Mismatches: 19, Indels: 38
0.74 0.09 0.18
Matches are distributed among these distances:
3 5 0.03
4 17 0.11
5 99 0.62
6 36 0.23
7 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:10389611 original size:12 final size:11
Alignment explanation
Indices: 10389562--10389613 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
10389552 TAGTATAATA
* *
10389562 TATTATTATAT
1 TATTTTTATTT
*
10389573 TATTATTATTAT
1 TATTTTTATT-T
10389585 TA-TTTTATTT
1 TATTTTTATTT
10389595 TATTTTTACTTT
1 TATTTTTA-TTT
10389607 TATTTTT
1 TATTTTT
10389614 CTAGTTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 3 0.08
11 20 0.56
12 13 0.36
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:10390442 original size:13 final size:13
Alignment explanation
Indices: 10390426--10390450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10390416 TTCTATTATA
10390426 ATTTTATTTTTTG
1 ATTTTATTTTTTG
10390439 ATTTTATTTTTT
1 ATTTTATTTTTT
10390451 TTATATTTGA
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:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
ATTTTATTTTTTG
Found at i:10390483 original size:15 final size:15
Alignment explanation
Indices: 10390427--10390487 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
10390417 TCTATTATAA
*
10390427 TTTTA-TTTTTTGA-
1 TTTTAGTTTTTTTAT
*
10390440 TTTTATTTTTTTTAT
1 TTTTAGTTTTTTTAT
* *
10390455 ATTTGAAGTCTTTTTAT
1 -TTT-TAGTTTTTTTAT
10390472 TTTTAGTTTTTTTAT
1 TTTTAGTTTTTTTAT
10390487 T
1 T
10390488 AATTTGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.13
14 7 0.18
15 11 0.29
16 6 0.16
17 9 0.24
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTAGTTTTTTTAT
Found at i:10400836 original size:17 final size:17
Alignment explanation
Indices: 10400816--10400866 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
10400806 AAATAGCTTC
10400816 AACAAAAAAAAAATAAA
1 AACAAAAAAAAAATAAA
*
10400833 AACAAAACAAAACA-AAA
1 AACAAAA-AAAAAATAAA
*
10400850 AA-GAAAAAAAAATAAA
1 AACAAAAAAAAAATAAA
10400866 A
1 A
10400867 GTTCCAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 5 0.17
16 7 0.24
17 12 0.41
18 5 0.17
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.04
Consensus pattern (17 bp):
AACAAAAAAAAAATAAA
Found at i:10402237 original size:3 final size:3
Alignment explanation
Indices: 10402223--10402471 Score: 105
Period size: 3 Copynumber: 85.3 Consensus size: 3
10402213 TTTTTGTTCC
* * * *
10402223 TAT TAC TAT TAT TAT TCT T-G TAT TAT TATT TAT TAT TA- TAG TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
10402266 TAG TA- TAG CAT -AT TA- TAT TA- TAT TAT TAT T-T TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
10402307 ATAG TAT GGTA- TAT TAT TAT TA- TAT TAT TA- TAT TA- TAT TGT TAT
1 -TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
10402351 TTT TAT TTT TAT T-T TCAC TAT TAT TAC TGT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
10402396 TAT TCT ATAG TAT AAT ATAT TAT CA- TAT CAT CAT CAT CAT TAT TAT
1 TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10402442 TAT TAT TAT TAG TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10402472 TTAACTTTTA
Statistics
Matches: 189, Mismatches: 35, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
2 28 0.15
3 146 0.77
4 13 0.07
5 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10402248 original size:11 final size:10
Alignment explanation
Indices: 10402231--10402467 Score: 60
Period size: 11 Copynumber: 22.2 Consensus size: 10
10402221 CCTATTACTA
*
10402231 TTATTATTCT
1 TTATTATTAT
10402241 TGTATTATTAT
1 T-TATTATTAT
10402252 TTATTATTAT
1 TTATTATTAT
* *
10402262 AGTA-TAGTATAGC
1 -TTATTA-T-TA-T
*
10402275 ATATTA-TAT
1 TTATTATTAT
10402284 TATATTATTATT
1 T-TATTATTA-T
10402296 TTATTATATAT
1 TTATTAT-TAT
* *
10402307 ATAGTATGGTAT
1 TTATTAT--TAT
10402319 ATTATTATTAT
1 -TTATTATTAT
10402330 ATTATTA-TAT
1 -TTATTATTAT
*
10402340 TATATTGTTAT
1 T-TATTATTAT
10402351 TT-TTATT-T
1 TTATTATTAT
10402359 TTATT-TTCA-
1 TTATTATT-AT
*
10402368 CTATTATTACT
1 TTATTATTA-T
10402379 GTTATTATTA-
1 -TTATTATTAT
*
10402389 TTATTGTTAT
1 TTATTATTAT
*
10402399 TCTATAGTATAAT
1 T-TAT--TATTAT
* *
10402412 ATATTATCAT
1 TTATTATTAT
* * *
10402422 ATCATCATCAT
1 -TTATTATTAT
10402433 CATTATTATTA-
1 --TTATTATTAT
10402444 TTATTATTAGT
1 TTATTATTA-T
10402455 ATTATTATTAT
1 -TTATTATTAT
10402466 TT
1 TT
10402468 TATTTTAACT
Statistics
Matches: 171, Mismatches: 26, Indels: 60
0.67 0.10 0.23
Matches are distributed among these distances:
8 5 0.03
9 29 0.17
10 37 0.22
11 51 0.30
12 38 0.22
13 11 0.06
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (10 bp):
TTATTATTAT
Found at i:10402288 original size:5 final size:5
Alignment explanation
Indices: 10402246--10402345 Score: 71
Period size: 5 Copynumber: 19.8 Consensus size: 5
10402236 ATTCTTGTAT
* * ** *
10402246 TATTA T-TTA TTATTA TAGTA TAGTA TAGCA TATTA TATTA TATTA TTATTT
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* **
10402297 TATTA TATATA TAGTA TGGTA TATTA TTATTA TA-T- TATTA TATTA TATT
1 TATTA TAT-TA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATT
10402346 GTTATTTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
3 2 0.03
4 5 0.06
5 55 0.71
6 16 0.21
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:10402291 original size:40 final size:43
Alignment explanation
Indices: 10402232--10402342 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
10402222 CTATTACTAT
* *
10402232 TATTATTCTTGTATTATTAT-TTATTATTATAGTATAGTATAGCA
1 TATTATTATTATATTATTATATTATTA-TATA-TATAGTATAGCA
* * *
10402276 TATTA-TATTATATTATTATTTTATTATATATATAGTATGGTA
1 TATTATTATTATATTATTATATTATTATATATATAGTATAGCA
10402318 TATTATTATTATATTATTATATTAT
1 TATTATTATTATATTATTATATTAT
10402343 ATTGTTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 15 0.25
43 34 0.57
44 11 0.18
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (43 bp):
TATTATTATTATATTATTATATTATTATATATATAGTATAGCA
Found at i:10402294 original size:8 final size:8
Alignment explanation
Indices: 10402281--10402342 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
10402271 TAGCATATTA
10402281 TATTATAT
1 TATTATAT
*
10402289 TATTATTT
1 TATTATAT
10402297 TATTATA-
1 TATTATAT
10402304 TATATAGTAT
1 TAT-TA-TAT
10402314 GGTA-TATTAT
1 --TATTA-TAT
10402324 TATTATAT
1 TATTATAT
10402332 TATTATAT
1 TATTATAT
10402340 TAT
1 TAT
10402343 ATTGTTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 3 0.07
8 31 0.69
9 4 0.09
10 5 0.11
12 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:10403365 original size:761 final size:756
Alignment explanation
Indices: 10402348--10403864 Score: 2601
Period size: 763 Copynumber: 2.0 Consensus size: 756
10402338 ATTATATTGT
* * *
10402348 TATTTTTATTTTTATTTTCACTATTATTACTGTTATTATTATTATTGTTATTCTATAGTATAATA
1 TATTTTTATTTTTATTCTCACTATTATTACTGATATTATTAGTATTGTTATTCTATAGTATAATA
* ** ** *
10402413 TATTATCATATCATCATCATCATTATTATTATTATTATTAGTATTATTATTATTTTATTTTAACT
66 TATTATCATATCATCATAAAAACCACTATTATTATTATTAGTATTATTATTATTTTATTTTAACT
*
10402478 TTTATTTTTCTAGTTCTTTCTTTTTATTTTTTGGATTTACGTTTGAATAAAGAAATTGAGTTTAT
131 TTTATTTTTCTAGTTCTTTCCTTTTATTTTTTGGATTTACGTTTGAATAAAGAAATTGAGTTTAT
10402543 AATCGAATCAGAGGGATCCAAGCTATTTGGTCAAAGATTTTATGTAGAACTAAATCACTAGAC-T
196 AATCGAATCAGAGGGATCCAAGCTATTTGGTCAAAGATTTTATGTAGAACTAAATCACTAGACTT
*
10402607 TTTAATTTGATTCAAGAAAATTAGCCAAGATGGAAGTGT-AAAATTATGC-TTTGGTAGAATTCA
261 TTTAATTTGATTCAAGAAAATTAGCCAAGA-GGAAGGGTGAAAATTATGCTTTTGGTAG-ATTC-
* *
10402670 ATCCTAGAATTCAAGCCTGGATTGGTTCTAT-CCGATCCTTAGAATTTTTGTTGAACA-TTGCTT
323 ATCCTAGAATTCAAGCCCGGATTGGTTCTATGCCG-TCCTTAGAATTTTTATTGAACATTTGCTT
*
10402733 ATAAATTGGACAGATTAC-TATAGAA-CAAGATTTGGTTGATTTGAGGAGAAATGGTTTTTTGTT
387 ATAAATTGGACAGATTACTTATAGAACCAAGATTTGGTTGATTTGAGGAGAAATGG-TTGTTGTT
10402796 TCATTTCTAGAAAAAGTCTCTAGGCTATAAGGTTTATGGGATTTTGGTTTTGAAGTTTTTGGGAA
451 TCATTTCTAGAAAAAGTCTCTAGGCTATAAGGTTTATGGGATTTTGGTTTTGAAGTTTTTGGGAA
10402861 TTCTAGGATTGGATTTGGGTTTTTGGAGTTTGGATTAAAGTTCTGGAAGGTTTTTAGAGGAATAT
516 TTCTAGGATTGGATTTGGGTTTTTGGAGTTTGGATTAAAGTTCTGGAAGG-TTTTAGAGGAATAT
10402926 GGAAAAACTGAAAATTTTTGGAATTTTTTTTGGAAAAATCTGGTTTTTGGATGAATGTTTGAATT
580 GGAAAAACTGAAAA-TTTTGGAATTTTTTTTGGAAAAATCTGG-TTTTGGATGAATGTTTGAA-T
10402991 TTTTGACCAGA-TTTGAATTTTTTAGTGAGATTCTGGTGATTTTTCTATAAATTAGCAAAATTTT
642 TTTTGACCAGATTTTGAATTTTTTAGTGAGATTCTGGTGATTTTTCTATAAATTAGCAAAATTTT
*
10403055 TCAGTTTTTGGTTGAATATTCTTGGTTTTTTTTTTTTTAGAGAAAGGTCAAAGC
707 TCAGTTTTCGGTTGAATATTCTTGG----TTTTTTTTTAGAGAAAGGTCAAAGC
10403109 TATTTCTTATTTTTATTCTCACTATTATTACT-ATATTATTAGTATTGTTATTCTATAGGTATAA
1 TATTT-TTATTTTTATTCTCACTATTATTACTGATATTATTAGTATTGTTATTCTATA-GTATAA
10403173 TAATATTATCATATCAAATCATAAAAACCACTATTA-TATTATTAGTATTATTA-TATTTTATTT
64 T-ATATTATCATATC--ATCATAAAAACCACTATTATTATTATTAGTATTATTATTATTTTATTT
*
10403236 TTACTTTTATTTTTCTAGTTCTTTCCTTTTATTTTTTGGATTTACGTTTGAAT-AAGAAATTGAG
126 TAACTTTTATTTTTCTAGTTCTTTCCTTTTATTTTTTGGATTTACGTTTGAATAAAGAAATTGAG
10403300 TTTATAATCGAATCAGAGGGAT-CAAGCTATTTGGTCAAAGATTTTATGTAGAACTAAATCACTA
191 TTTATAATCGAATCAGAGGGATCCAAGCTATTTGGTCAAAGATTTTATGTAGAACTAAATCACTA
*
10403364 GACTTTTTAATTTGATTCAAGAAAATTAGCCAGGAGGAAGGGTGAAAATTATGCTTTTGGTAGAT
256 GACTTTTTAATTTGATTCAAGAAAATTAGCCAAGAGGAAGGGTGAAAATTATGCTTTTGGTAGAT
10403429 TCATCCTAGAATTCAAGCCCGGATTGGTTCTATGCCGTCCTTAGAATTTTTATTGAACATTTGCT
321 TCATCCTAGAATTCAAGCCCGGATTGGTTCTATGCCGTCCTTAGAATTTTTATTGAACATTTGCT
*
10403494 TATAAATTGGACAGATTACTTATAGAACCATGATTTGGTTGATTTGAGGAGAAATGGTTGTTGTT
386 TATAAATTGGACAGATTACTTATAGAACCAAGATTTGGTTGATTTGAGGAGAAATGGTTGTTGTT
10403559 TCATTTCTAGAAAAAGTCTCTAGGCTATAAGGTTTATGGGATTTTGGTTTTGAAGTTTTTGGGAA
451 TCATTTCTAGAAAAAGTCTCTAGGCTATAAGGTTTATGGGATTTTGGTTTTGAAGTTTTTGGGAA
*
10403624 TTTTAGGATTGGATTTGGGTTTTTGGAGTTTGGATTAAAGTTCTGGAAGGTTTTAGAGGAATATG
516 TTCTAGGATTGGATTTGGGTTTTTGGAGTTTGGATTAAAGTTCTGGAAGGTTTTAGAGGAATATG
*
10403689 GAAAAACTGAAAATTTTGGAATTTTTTTTGGAAAAATTTGGTTTTGGATGAATGTTTGAATTTTT
581 GAAAAACTGAAAATTTTGGAATTTTTTTTGGAAAAATCTGGTTTTGGATGAATGTTTGAATTTTT
10403754 GACCAGATTTTGAATTTTTTAGTGAGATTCTGGTGATTTTTCTATAAATTAGCAAAATTTTTCAG
646 GACCAGATTTTGAATTTTTTAGTGAGATTCTGGTGATTTTTCTATAAATTAGCAAAATTTTTCAG
10403819 TTTTCGGTTGAATATTCTTGGTTTTTTTTTAGAGAAAGGTCAAAGC
711 TTTTCGGTTGAATATTCTTGGTTTTTTTTTAGAGAAAGGTCAAAGC
10403865 AGAAGGCTTT
Statistics
Matches: 723, Mismatches: 20, Indels: 31
0.93 0.03 0.04
Matches are distributed among these distances:
756 25 0.03
759 12 0.02
760 96 0.13
761 158 0.22
762 164 0.23
763 210 0.29
764 45 0.06
765 13 0.02
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.44
Consensus pattern (756 bp):
TATTTTTATTTTTATTCTCACTATTATTACTGATATTATTAGTATTGTTATTCTATAGTATAATA
TATTATCATATCATCATAAAAACCACTATTATTATTATTAGTATTATTATTATTTTATTTTAACT
TTTATTTTTCTAGTTCTTTCCTTTTATTTTTTGGATTTACGTTTGAATAAAGAAATTGAGTTTAT
AATCGAATCAGAGGGATCCAAGCTATTTGGTCAAAGATTTTATGTAGAACTAAATCACTAGACTT
TTTAATTTGATTCAAGAAAATTAGCCAAGAGGAAGGGTGAAAATTATGCTTTTGGTAGATTCATC
CTAGAATTCAAGCCCGGATTGGTTCTATGCCGTCCTTAGAATTTTTATTGAACATTTGCTTATAA
ATTGGACAGATTACTTATAGAACCAAGATTTGGTTGATTTGAGGAGAAATGGTTGTTGTTTCATT
TCTAGAAAAAGTCTCTAGGCTATAAGGTTTATGGGATTTTGGTTTTGAAGTTTTTGGGAATTCTA
GGATTGGATTTGGGTTTTTGGAGTTTGGATTAAAGTTCTGGAAGGTTTTAGAGGAATATGGAAAA
ACTGAAAATTTTGGAATTTTTTTTGGAAAAATCTGGTTTTGGATGAATGTTTGAATTTTTGACCA
GATTTTGAATTTTTTAGTGAGATTCTGGTGATTTTTCTATAAATTAGCAAAATTTTTCAGTTTTC
GGTTGAATATTCTTGGTTTTTTTTTAGAGAAAGGTCAAAGC
Found at i:10404037 original size:15 final size:16
Alignment explanation
Indices: 10404014--10404067 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 16
10404004 TTTTTTTTTA
10404014 TTTTA-ATTTTAA-TT
1 TTTTATATTTTAAGTT
*
10404028 TTTTATATTTTAAGTC
1 TTTTATATTTTAAGTT
*
10404044 CTTT-TATTTTAAGTT
1 TTTTATATTTTAAGTT
*
10404059 TTTTTTATT
1 TTTTATATT
10404068 CATTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.15
15 20 0.61
16 8 0.24
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (16 bp):
TTTTATATTTTAAGTT
Found at i:10404064 original size:26 final size:26
Alignment explanation
Indices: 10404035--10404104 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 26
10404025 ATTTTTTATA
* * *
10404035 TTTTAAGTCCTTTTATTTTA-AGTTT
1 TTTTTAGTCATTTTATTTTATAGGTT
*
10404060 TTTTTATTCATTTTATTTTATAGGTT
1 TTTTTAGTCATTTTATTTTATAGGTT
10404086 TTTATTA-TC-TATTTATTTT
1 TTT-TTAGTCAT-TTTATTTT
10404105 TATTGAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 18 0.47
26 17 0.45
27 3 0.08
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTTAGTCATTTTATTTTATAGGTT
Found at i:10404508 original size:13 final size:13
Alignment explanation
Indices: 10404486--10404525 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10404476 ATCATAGGCT
*
10404486 TTTTTTATTTTAA
1 TTTTTAATTTTAA
*
10404499 TTTTTAATTTTAC
1 TTTTTAATTTTAA
10404512 TTTTTATATTTTAA
1 TTTTTA-ATTTTAA
10404526 ATCCTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:10404546 original size:23 final size:23
Alignment explanation
Indices: 10404505--10404561 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
10404495 TTAATTTTTA
10404505 ATTTTACTTTTTATATTTTAAATC
1 ATTTTA-TTTTTATATTTTAAATC
* * * *
10404529 CTTTTATTTTTATTTTTTTATTC
1 ATTTTATTTTTATATTTTAAATC
10404552 ATTTTATTTT
1 ATTTTATTTT
10404562 ACTGGTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (23 bp):
ATTTTATTTTTATATTTTAAATC
Found at i:10406389 original size:15 final size:15
Alignment explanation
Indices: 10406371--10406404 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10406361 ATTTGATCTG
*
10406371 AAAAATTTAAATTCA
1 AAAAATTTAAATCCA
*
10406386 AAAAATTTGAATCCA
1 AAAAATTTAAATCCA
10406401 AAAA
1 AAAA
10406405 GATTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATTTAAATCCA
Found at i:10407076 original size:19 final size:19
Alignment explanation
Indices: 10407039--10407078 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10407029 ATATCTTATT
* **
10407039 AATTAAAATATTATTTTAA
1 AATTAAAATATAAAGTTAA
10407058 AATTAAAATATAAAGTTAA
1 AATTAAAATATAAAGTTAA
10407077 AA
1 AA
10407079 AAGTTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTAAAATATAAAGTTAA
Found at i:10407744 original size:16 final size:16
Alignment explanation
Indices: 10407720--10407778 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
10407710 AAATCAAACC
10407720 AAATTTAAAATAATCT
1 AAATTTAAAATAATCT
*
10407736 AAATCTAAAATAAT-T
1 AAATTTAAAATAATCT
*
10407751 CAAATTTAAAATTATCT
1 -AAATTTAAAATAATCT
10407768 AAATTTGAAAA
1 AAATTT-AAAA
10407779 AACCTGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.03
16 31 0.84
17 5 0.14
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATTTAAAATAATCT
Found at i:10408451 original size:3 final size:3
Alignment explanation
Indices: 10408445--10408475 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
10408435 TCTTCTTCTT
*
10408445 CTA CTA CTA ATA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
10408476 GCGTTCCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:10415784 original size:14 final size:15
Alignment explanation
Indices: 10415765--10415793 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10415755 CATAGAACTT
10415765 TGTGTGTGT-TTTTG
1 TGTGTGTGTGTTTTG
10415779 TGTGTGTGTGTTTTG
1 TGTGTGTGTGTTTTG
10415794 AGGGAGAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (15 bp):
TGTGTGTGTGTTTTG
Found at i:10417242 original size:31 final size:31
Alignment explanation
Indices: 10417206--10417268 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
10417196 AGAACAATTT
10417206 ATAAGCTTTTAAAGGAATTAAACAATGAAAA
1 ATAAGCTTTTAAAGGAATTAAACAATGAAAA
*
10417237 ATAAGCTTTTAGAGGAATTAAACAATGAAAA
1 ATAAGCTTTTAAAGGAATTAAACAATGAAAA
10417268 A
1 A
10417269 CAACTATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.25
Consensus pattern (31 bp):
ATAAGCTTTTAAAGGAATTAAACAATGAAAA
Found at i:10419281 original size:19 final size:19
Alignment explanation
Indices: 10419253--10419289 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10419243 TTCTAAGAAA
10419253 AAACACCAATGCCAAAAGC
1 AAACACCAATGCCAAAAGC
* *
10419272 AAACATCAATGCTAAAAG
1 AAACACCAATGCCAAAAG
10419290 AAAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (19 bp):
AAACACCAATGCCAAAAGC
Found at i:10425058 original size:24 final size:24
Alignment explanation
Indices: 10425014--10425088 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
10425004 AACTTACACA
*
10425014 AATAAATAT--AATCATACCATGC
1 AATAAATATAAAATCATATCATGC
10425036 AATAAATATAAAATCATATCATGC
1 AATAAATATAAAATCATATCATGC
* *
10425060 AAT-AATCATAAAATCTTATTATGC
1 AATAAAT-ATAAAATCATATCATGC
10425084 AATAA
1 AATAA
10425089 TCATATCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.20
23 3 0.07
24 33 0.72
25 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (24 bp):
AATAAATATAAAATCATATCATGC
Found at i:10425089 original size:24 final size:24
Alignment explanation
Indices: 10425023--10425093 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
10425013 AAATAAATAT
*
10425023 AATCATACCATGCAATAAAT-ATAA
1 AATCATATCATGCAAT-AATCATAA
10425047 AATCATATCATGCAATAATCATAA
1 AATCATATCATGCAATAATCATAA
* *
10425071 AATCTTATTATGCAATAATCATA
1 AATCATATCATGCAATAATCATA
10425094 TCATGCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 3 0.07
24 40 0.93
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.31
Consensus pattern (24 bp):
AATCATATCATGCAATAATCATAA
Found at i:10425130 original size:12 final size:11
Alignment explanation
Indices: 10425113--10425166 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
10425103 AATAAATAAT
10425113 AAATAACTATGC
1 AAATAA-TATGC
**
10425125 AAATAATATAT
1 AAATAATATGC
10425136 AAATAATCATGC
1 AAATAAT-ATGC
10425148 AAATAATTATGC
1 AAATAA-TATGC
10425160 AATATAA
1 AA-ATAA
10425167 ATATATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.29
12 20 0.57
13 5 0.14
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.30
Consensus pattern (11 bp):
AAATAATATGC
Found at i:10425154 original size:23 final size:25
Alignment explanation
Indices: 10425093--10425154 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
10425083 CAATAATCAT
10425093 ATCATGC-AATAATAAATAATAAATA
1 ATCATGCAAATAAT-AATAATAAATA
10425118 A-CTATGCAAATAAT-AT-ATAAATA
1 ATC-ATGCAAATAATAATAATAAATA
10425141 ATCATGCAAATAAT
1 ATCATGCAAATAAT
10425155 TATGCAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 19 0.56
24 4 0.12
25 5 0.15
26 6 0.18
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (25 bp):
ATCATGCAAATAATAATAATAAATA
Found at i:10425177 original size:25 final size:24
Alignment explanation
Indices: 10425149--10425213 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
10425139 TAATCATGCA
*
10425149 AATAATTATGCAATATAAATATATT
1 AATAATCATGCAA-ATAAATATATT
*
10425174 AATAATCATGCAAGTAAATATATT
1 AATAATCATGCAAATAAATATATT
10425198 AAT-ATCATGCAAATAA
1 AATAATCATGCAAATAA
10425214 TACATAATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 12 0.32
24 13 0.35
25 12 0.32
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (24 bp):
AATAATCATGCAAATAAATATATT
Found at i:10425178 original size:60 final size:60
Alignment explanation
Indices: 10425096--10425276 Score: 167
Period size: 60 Copynumber: 3.0 Consensus size: 60
10425086 TAATCATATC
10425096 ATGCAATAATAAATAATAAATAA-CTATGCAAAT-AATATATAAATAATCATGCAAATAATT
1 ATGCAATAATAAATAATAAATAATC-ATGCAAATAAATATATAAAT-ATCATGCAAATAATT
* * * *
10425156 ATGCAAT-ATAAATATATTAATAATCATGCAAGTAAATATATTAATATCATGCAAATAATAC
1 ATGCAATAATAAATA-ATAAATAATCATGCAAATAAATATATAAATATCATGCAAATAAT-T
* * * * *
10425217 AT--AATCATGTAATATAATAAATAATCGTGCAAGTAAATATATTAATTACCATGC-AATAAT
1 ATGCAAT-A-ATAA-ATAATAAATAATCATGCAAATAAATATA-TAAATATCATGCAAATAAT
10425277 AATAAATATC
Statistics
Matches: 102, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
59 10 0.10
60 35 0.34
61 13 0.13
62 32 0.31
63 12 0.12
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (60 bp):
ATGCAATAATAAATAATAAATAATCATGCAAATAAATATATAAATATCATGCAAATAATT
Found at i:10425215 original size:83 final size:79
Alignment explanation
Indices: 10425107--10425312 Score: 195
Period size: 83 Copynumber: 2.5 Consensus size: 79
10425097 TGCAATAATA
* *
10425107 AATAATAAATAACTATGCAAATAATATATAAATAATCATGCAAATAATTATGCAATATAAATATA
1 AATAATAAATATC-ATGCAAATAATATATAAATAATCATGCAAATAATCATGCAA-ATAAATATA
*
10425172 TTAATAATCATGCAAGT
64 TTAATAACCATGCAA-T
* * ** * *
10425189 AAATATATTAATATCATGCAAATAATACATAATCATGTAAT-ATAATAAATAATCGTGCAAGTAA
1 -AATA-ATAAATATCATGCAAATAATATATAA--A--TAATCAT-GCAAATAATCATGCAAATAA
*
10425253 ATATATTAATTACCATGCAAT
59 ATATATTAATAACCATGCAAT
*
10425274 AATAATAAATATCATGCAAAT-ATAT-T-AATTATCATGCAA
1 AATAATAAATATCATGCAAATAATATATAAATAATCATGCAA
10425313 TACTAATAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
76 5 0.05
77 2 0.02
78 1 0.01
80 1 0.01
81 1 0.01
82 3 0.03
83 36 0.36
84 11 0.11
85 2 0.02
86 23 0.23
87 16 0.16
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (79 bp):
AATAATAAATATCATGCAAATAATATATAAATAATCATGCAAATAATCATGCAAATAAATATATT
AATAACCATGCAAT
Found at i:10425235 original size:20 final size:19
Alignment explanation
Indices: 10425106--10425324 Score: 90
Period size: 20 Copynumber: 10.6 Consensus size: 19
10425096 ATGCAATAAT
10425106 AAATAATAAATAA-CTATGC
1 AAATAATAAATAATC-ATGC
10425125 AAATAATATATAAATAATCATGC
1 --A-AATA-ATAAATAATCATGC
*
10425148 AAATAAT-TATGCAAT-AT--
1 AAATAATAAAT--AATCATGC
*
10425165 AAATATATTAATAATCATGC
1 AAATA-ATAAATAATCATGC
* *
10425185 AAGTAAATATATTAATATCATGC
1 AAAT-AATA-AAT-A-ATCATGC
* *
10425208 AAATAATACATAATCATGT
1 AAATAATAAATAATCATGC
*
10425227 AATATAATAAATAATCGTGC
1 AA-ATAATAAATAATCATGC
* *
10425247 AAGTAAATATATTAATTACCATGC
1 AAAT-AATA-AATAA-T--CATGC
10425271 AATAATAATAAAT-ATCATGC
1 -A-AATAATAAATAATCATGC
* *
10425291 AAATATATTAATTATCATGC
1 AAATA-ATAAATAATCATGC
10425311 AATACTAATAAATA
1 AA-A-TAATAAATA
10425325 CTATTCAAGA
Statistics
Matches: 152, Mismatches: 20, Indels: 52
0.68 0.09 0.23
Matches are distributed among these distances:
17 8 0.05
18 10 0.07
19 21 0.14
20 47 0.31
21 16 0.11
22 13 0.09
23 23 0.15
24 7 0.05
25 5 0.03
26 2 0.01
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (19 bp):
AAATAATAAATAATCATGC
Found at i:10425250 original size:62 final size:60
Alignment explanation
Indices: 10425166--10425281 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 60
10425156 ATGCAATATA
* *
10425166 AATATATTAATAATCATGCAAGTAAATATATTAA-TATCATGCAAATAATACATAATCATGT
1 AATATATAAATAATCATGCAAGTAAATATATTAATTACCATGC-AATAATA-ATAATCATGT
*
10425227 AATATAATAAATAATCGTGCAAGTAAATATATTAATTACCATGCAATAATAATAA
1 AATAT-ATAAATAATCATGCAAGTAAATATATTAATTACCATGCAATAATAATAA
10425282 ATATCATGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 9 0.18
62 34 0.68
63 7 0.14
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (60 bp):
AATATATAAATAATCATGCAAGTAAATATATTAATTACCATGCAATAATAATAATCATGT
Found at i:10425297 original size:40 final size:40
Alignment explanation
Indices: 10425107--10425324 Score: 162
Period size: 40 Copynumber: 5.3 Consensus size: 40
10425097 TGCAATAATA
*
10425107 AATAATAAATAACTATGCAAATAATATATAAATAATCATGCAAAT
1 AATAATAAATATC-ATGCAAAT-ATAT-T-AATAATCATGC-AAT
* **
10425152 AATTATGCA-AT-AT--AAATATATTAATAATCATGCAAGT
1 AATAATAAATATCATGCAAATATATTAATAATCATGCAA-T
* *
10425189 AAATATATTAATATCATGCAAATA-A-TACATAATCATGTAAT
1 -AATA-ATAAATATCATGCAAATATATTA-ATAATCATGCAAT
* * *
10425230 -ATAATAAATAATCGTGCAAGTAAATATATTAATTACCATGCAAT
1 AATAATAAAT-ATCATGC----AAATATATTAATAATCATGCAAT
*
10425274 AATAATAAATATCATGCAAATATATTAATTATCATGCAAT
1 AATAATAAATATCATGCAAATATATTAATAATCATGCAAT
*
10425314 ACTAATAAATA
1 AATAATAAATA
10425325 CTATTCAAGA
Statistics
Matches: 141, Mismatches: 16, Indels: 37
0.73 0.08 0.19
Matches are distributed among these distances:
36 2 0.01
37 12 0.09
38 9 0.06
39 16 0.11
40 38 0.27
41 5 0.04
42 14 0.10
43 10 0.07
44 18 0.13
45 17 0.12
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (40 bp):
AATAATAAATATCATGCAAATATATTAATAATCATGCAAT
Found at i:10429271 original size:21 final size:22
Alignment explanation
Indices: 10429238--10429280 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
10429228 GAAAATCACA
**
10429238 TACATGAAGGGATTGATCACCC
1 TACATGAAGGGATCAATCACCC
*
10429260 TACATGGA-GGATCAATCACCC
1 TACATGAAGGGATCAATCACCC
10429281 CAATAATAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (22 bp):
TACATGAAGGGATCAATCACCC
Found at i:10429428 original size:13 final size:14
Alignment explanation
Indices: 10429391--10429433 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
10429381 CAAACTTATG
10429391 TTAACTCTTTGACTT
1 TTAA-TCTTTGACTT
*
10429406 TTTATCTTTGACTT
1 TTAATCTTTGACTT
10429420 TTAAT-TTTGACTT
1 TTAATCTTTGACTT
10429433 T
1 T
10429434 GACCTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 9 0.35
14 14 0.54
15 3 0.12
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (14 bp):
TTAATCTTTGACTT
Done.