Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 23 of 211
Found at i:6981496 original size:41 final size:41
Alignment explanation
Indices: 6981382--6981496 Score: 185
Period size: 41 Copynumber: 2.8 Consensus size: 41
6981372 GGCTATATAT
* * *
6981382 GGCACTTAGTGTGGGGAATTATAATAGCTTCGACTATGTAA
1 GGCACTTAGTGTGCGGAATTATAATAGCTTCGGCTAGGTAA
6981423 GGCACTTAGTGTGCGGAATTATAATAGCTTCGGCTAGGTAA
1 GGCACTTAGTGTGCGGAATTATAATAGCTTCGGCTAGGTAA
* *
6981464 GGCACTTAGTGTGCAGAATTATAATAACTTCGG
1 GGCACTTAGTGTGCGGAATTATAATAGCTTCGG
6981497 GTATATGATT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (41 bp):
GGCACTTAGTGTGCGGAATTATAATAGCTTCGGCTAGGTAA
Found at i:6984293 original size:26 final size:26
Alignment explanation
Indices: 6984263--6984319 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
6984253 GCAACTCTTA
* *
6984263 TGAGCATCCC-ATTATATGGTTCTTTG
1 TGAGCATCCCGATTA-AAGGCTCTTTG
*
6984289 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCATCCCGATTAAAGGCTCTTTG
6984315 TGAGC
1 TGAGC
6984320 TAACTGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (26 bp):
TGAGCATCCCGATTAAAGGCTCTTTG
Found at i:6988013 original size:2 final size:2
Alignment explanation
Indices: 6988006--6988044 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
6987996 TTCTGTATGT
* *
6988006 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA TC TA TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6988045 AATTTTATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7000181 original size:25 final size:26
Alignment explanation
Indices: 7000130--7000181 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
7000120 TGCAAAGTAA
* *
7000130 ACATATTTGATATAAATTATATATAT
1 ACATATGTGATATAAAATATATATAT
7000156 ACATATGTG-TATAAAATAGTAT-TAT
1 ACATATGTGATATAAAATA-TATATAT
7000181 A
1 A
7000182 AGAGCATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
ACATATGTGATATAAAATATATATAT
Found at i:7001577 original size:16 final size:16
Alignment explanation
Indices: 7001558--7001588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7001548 GACCCTTTTT
7001558 TTTGGTTTAATTTTAA
1 TTTGGTTTAATTTTAA
*
7001574 TTTGGTTTTATTTTA
1 TTTGGTTTAATTTTA
7001589 TTGACGGGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (16 bp):
TTTGGTTTAATTTTAA
Found at i:7010716 original size:35 final size:35
Alignment explanation
Indices: 7010676--7010773 Score: 133
Period size: 35 Copynumber: 2.8 Consensus size: 35
7010666 TACTCTCTGT
* * **
7010676 CTGGTGTGTTTCGGTTGAATTAGCTCTTATGGGCA
1 CTGGTGTGTTTCAGTTGGATTAGCTCTTATAAGCA
7010711 CTGGTGTGTTTCAGTTGGATTAGCTCTTATAAGCA
1 CTGGTGTGTTTCAGTTGGATTAGCTCTTATAAGCA
***
7010746 CTAACGTGTTTCAGTTGGATTAGCTCTT
1 CTGGTGTGTTTCAGTTGGATTAGCTCTT
7010774 GTGAGAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.41
Consensus pattern (35 bp):
CTGGTGTGTTTCAGTTGGATTAGCTCTTATAAGCA
Found at i:7012336 original size:22 final size:22
Alignment explanation
Indices: 7012311--7012389 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
7012301 CATAAATAAC
*
7012311 GAAATAAAATGACAATAATAGT
1 GAAATAAAATAACAATAATAGT
* *
7012333 GAAATAATATAACAAT-GTA-T
1 GAAATAAAATAACAATAATAGT
* *
7012353 G--ATAATAATGATAATAATAGT
1 GAAATAA-AATAACAATAATAGT
*
7012374 GAAATAATATAACAAT
1 GAAATAAAATAACAAT
7012390 GTATGATAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
18 4 0.10
19 6 0.14
20 4 0.10
21 4 0.10
22 20 0.48
23 4 0.10
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (22 bp):
GAAATAAAATAACAATAATAGT
Found at i:7012361 original size:21 final size:21
Alignment explanation
Indices: 7012335--7012406 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
7012325 ATAATAGTGA
7012335 AATAATATAACAATGTATGAT
1 AATAATATAACAATGTATGAT
*
7012356 AATAATGATAATAA--TAGTGA-
1 AATAAT-ATAACAATGTA-TGAT
7012376 AATAATATAACAATGTATGAT
1 AATAATATAACAATGTATGAT
7012397 AATAATATAA
1 AATAATATAA
7012407 TTACATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 6 0.14
20 11 0.25
21 21 0.48
22 6 0.14
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.32
Consensus pattern (21 bp):
AATAATATAACAATGTATGAT
Found at i:7012369 original size:41 final size:41
Alignment explanation
Indices: 7012314--7012407 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
7012304 AAATAACGAA
*
7012314 ATAA-AATGACAATAATAGTGAAATAATATAACAATGTATG
1 ATAATAATGATAATAATAGTGAAATAATATAACAATGTATG
7012354 ATAATAATGATAATAATAGTGAAATAATATAACAATGTATG
1 ATAATAATGATAATAATAGTGAAATAATATAACAATGTATG
7012395 ATAATAAT-ATAAT
1 ATAATAATGATAAT
7012408 TACATAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
40 9 0.17
41 43 0.83
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.31
Consensus pattern (41 bp):
ATAATAATGATAATAATAGTGAAATAATATAACAATGTATG
Found at i:7018309 original size:28 final size:28
Alignment explanation
Indices: 7018268--7018331 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 28
7018258 AAAATGTCAA
7018268 AATTTTAGGGTTTGATAGTGAATTTGATG
1 AATTTT-GGGTTTGATAGTGAATTTGATG
7018297 AATTTTGGGTTTGATAGTGAATTTGATG
1 AATTTTGGGTTTGATAGTGAATTTGATG
7018325 AATTTTG
1 AATTTTG
7018332 ACTTGGGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (28 bp):
AATTTTGGGTTTGATAGTGAATTTGATG
Found at i:7018953 original size:35 final size:35
Alignment explanation
Indices: 7018864--7019011 Score: 120
Period size: 35 Copynumber: 4.2 Consensus size: 35
7018854 TTTGTCTAGT
* * * *
7018864 GTGTTTCGATTGAATTAA-CTCTTATGTGCACT-GC
1 GTGTTTTGATTGGA-TAAGCTCTTATGAGCAATGGC
* * * *
7018898 GTATTTTGGTTGGATGAGCTCTTATGAGCAGTGGC
1 GTGTTTTGATTGGATAAGCTCTTATGAGCAATGGC
* *
7018933 GTGTTTAGATTGGATAAGCTCTTATGAGCAATGGT
1 GTGTTTTGATTGGATAAGCTCTTATGAGCAATGGC
* * * * * *
7018968 GTGTTTTGGTTGGATTAGCTATTGTGAGCATTTGGT
1 GTGTTTTGATTGGATAAGCTCTTATGAGCA-ATGGC
7019004 GTGTTTTG
1 GTGTTTTG
7019012 GAGGGATTGA
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
33 2 0.02
34 22 0.24
35 56 0.61
36 12 0.13
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (35 bp):
GTGTTTTGATTGGATAAGCTCTTATGAGCAATGGC
Found at i:7021251 original size:20 final size:22
Alignment explanation
Indices: 7021212--7021251 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7021202 GATTTCCTAT
7021212 ATAAAGAGACAATGAAGGTGAG
1 ATAAAGAGACAATGAAGGTGAG
*
7021234 ATAAGGAGA-AAT-AAGGTG
1 ATAAAGAGACAATGAAGGTG
7021252 GTGAGCGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.33, T:0.15
Consensus pattern (22 bp):
ATAAAGAGACAATGAAGGTGAG
Found at i:7031403 original size:16 final size:15
Alignment explanation
Indices: 7031382--7031416 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7031372 TAAGATCTTG
7031382 TATATCTAGATAAAAA
1 TATATCTAGA-AAAAA
*
7031398 TATATCTATAAAAAA
1 TATATCTAGAAAAAA
7031413 TATA
1 TATA
7031417 GACAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (15 bp):
TATATCTAGAAAAAA
Found at i:7044483 original size:3 final size:3
Alignment explanation
Indices: 7044475--7044519 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
7044465 AGGGCTAAAT
7044475 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7044520 CTACTACTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7054454 original size:3 final size:3
Alignment explanation
Indices: 7054448--7054489 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
7054438 GCAACAACCA
*
7054448 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7054490 TTGAATTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7055594 original size:18 final size:17
Alignment explanation
Indices: 7055562--7055603 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
7055552 GTCATTACAA
*
7055562 GTAATATTTTATATTAT
1 GTAATTTTTTATATTAT
7055579 GTAATTTTTATATATTAT
1 GTAATTTTT-TATATTAT
7055597 GTAATTT
1 GTAATTT
7055604 GTAACACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
GTAATTTTTTATATTAT
Found at i:7055988 original size:3 final size:3
Alignment explanation
Indices: 7055980--7056012 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7055970 TCTTTTGGAC
7055980 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7056013 CTTAGGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7056130 original size:20 final size:19
Alignment explanation
Indices: 7056107--7056144 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7056097 AACATTTCTA
7056107 TTCGTTTTATTTAATTTTAT
1 TTCGTTTTATTT-ATTTTAT
*
7056127 TTCGTTTTGTTTATTTTA
1 TTCGTTTTATTTATTTTA
7056145 CTACATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (19 bp):
TTCGTTTTATTTATTTTAT
Found at i:7058131 original size:22 final size:22
Alignment explanation
Indices: 7058098--7058158 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
7058088 GCCCGGCCCG
* *
7058098 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAACTAA
7058121 TTTTTAATAAAATTAAAACTAA
1 TTTTTAATAAAATTAAAACTAA
* *
7058143 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
7058159 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAACTAA
Found at i:7058171 original size:16 final size:16
Alignment explanation
Indices: 7058134--7058173 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
7058124 TTAATAAAAT
* *
7058134 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
7058150 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
7058166 TAAAATTA
1 TAAAATTA
7058174 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:7058258 original size:9 final size:9
Alignment explanation
Indices: 7058246--7058273 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7058236 TTTATCAAAT
7058246 TATTAATTG
1 TATTAATTG
7058255 TATTAATTG
1 TATTAATTG
7058264 TATTAATTG
1 TATTAATTG
7058273 T
1 T
7058274 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:7058284 original size:68 final size:66
Alignment explanation
Indices: 7058162--7058304 Score: 241
Period size: 68 Copynumber: 2.1 Consensus size: 66
7058152 AAATTAATTG
* *
7058162 TTAGTAAAATTATCAAATTATTAATTATTAATTGTATTAATTTTTGTAATAAAATCTAACATTTG
1 TTAGTAAAATTATCAAATTATTAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
7058227 A
66 A
*
7058228 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAA-T-TATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
7058293 TGA
64 TGA
7058296 TTAGTAAAA
1 TTAGTAAAA
7058305 CAAACTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 23 0.32
67 1 0.01
68 47 0.66
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (66 bp):
TTAGTAAAATTATCAAATTATTAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
A
Found at i:7062174 original size:3 final size:3
Alignment explanation
Indices: 7062166--7062269 Score: 57
Period size: 3 Copynumber: 33.7 Consensus size: 3
7062156 ATCTAATCCT
* * * * * * *
7062166 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG TTG TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
7062214 TTA TTG TTA TTG TTG TTA TTGCA TTTA TTA TTA TTA CTT- TCC TTA TTA
1 TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA TTA -TTA TTA TTA TTA
7062262 TTA TTA TT
1 TTA TTA TT
7062270 TACCCACTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
2 1 0.01
3 78 0.92
4 3 0.04
5 1 0.01
6 2 0.02
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7065710 original size:8 final size:8
Alignment explanation
Indices: 7065697--7065780 Score: 102
Period size: 8 Copynumber: 10.8 Consensus size: 8
7065687 AGACTCAAAA
7065697 AAAAAATC
1 AAAAAATC
7065705 AAAAAATC
1 AAAAAATC
7065713 -AAAAATC
1 AAAAAATC
7065720 AAAAAAATC
1 -AAAAAATC
7065729 AAAAAATC
1 AAAAAATC
7065737 AAAAAATC
1 AAAAAATC
7065745 AAAAAAT-
1 AAAAAATC
* *
7065752 -TAAAATA
1 AAAAAATC
*
7065759 AAAAAATT
1 AAAAAATC
*
7065767 AAAAAATT
1 AAAAAATC
7065775 AAAAAA
1 AAAAAA
7065781 AAACAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
6 5 0.07
7 7 0.10
8 50 0.72
9 7 0.10
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAATC
Found at i:7065728 original size:24 final size:24
Alignment explanation
Indices: 7065696--7065802 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
7065686 CAGACTCAAA
7065696 AAAAAAATCAAAAAATCAAAAATC
1 AAAAAAATCAAAAAATCAAAAATC
7065720 AAAAAAATCAAAAAATCAAAAAATC
1 AAAAAAATCAAAAAATC-AAAAATC
* *
7065745 -AAAAAATTAAAATAA--AAAAATT
1 AAAAAAATCAAAA-AATCAAAAATC
* * * *
7065767 AAAAAATTAAAAAAAAACAAAAATA
1 AAAAAAAT-CAAAAAATCAAAAATC
7065792 AAAAAAATCAA
1 AAAAAAATCAA
7065803 GGTCAAAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
22 6 0.09
23 8 0.11
24 34 0.49
25 22 0.31
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (24 bp):
AAAAAAATCAAAAAATCAAAAATC
Found at i:7065794 original size:22 final size:22
Alignment explanation
Indices: 7065737--7065783 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7065727 TCAAAAAATC
*
7065737 AAAAAATCAAAAAATTAAAATA
1 AAAAAATAAAAAAATTAAAATA
*
7065759 AAAAAATTAAAAAATTAAAA-A
1 AAAAAATAAAAAAATTAAAATA
7065780 AAAA
1 AAAA
7065784 CAAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAAATAAAAAAATTAAAATA
Found at i:7066704 original size:15 final size:15
Alignment explanation
Indices: 7066679--7066719 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
7066669 CTTAAAAAAT
*
7066679 AAATGAAAAAAGTGAA
1 AAAT-AAAAAAATGAA
7066695 AAATAAAAAAATGAA
1 AAATAAAAAAATGAA
7066710 AAAGTAAAAA
1 AAA-TAAAAA
7066720 TGGAGAGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATAAAAAAATGAA
Found at i:7068080 original size:88 final size:88
Alignment explanation
Indices: 7067931--7069057 Score: 1903
Period size: 88 Copynumber: 12.8 Consensus size: 88
7067921 GATCGAAAAT
* * *
7067931 CAAACCTTGCTTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATTTTGCATTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
*
7067996 GACAGTGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
*
7068019 CAAACCTTGCCTCTCTCGGTTGTAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
*
7068084 GACAGTGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
*
7068107 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATATTGCCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
* *
7068172 GACAGCGAAGGAGGTTGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
* * *
7068195 CAAACCTTGTCTCTCTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGTCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
* *
7068260 GAAAGTGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
* * *
7068283 CAAACCTTGCCTCTCTCGGTTGTGAGGGAGCTGGTTGAAAACAAAAGATCTTACCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
* *
7068348 GACAACGAAGCAAGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
*
7068371 CAAACCTTGCCTCTCTTGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
7068436 GACAGCGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
7068459 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACCAAAAGATCTTGCCTTCCTGCAT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA-CAAAAGATCTTGCCTTCCTGCAT
* *
7068524 TGAAAGTGAAGCAGGTCGAAGACA
65 TGACAGCGAAGCAGGTCGAAGACA
* * * *
7068548 CAAACCTTGCCTCTCTCGGTTGTAAGGGAGCTGGTTGAAGACAAAAGATTTTACCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
*
7068613 GACAGCGAAGCAGGTTGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
*
7068636 CAAACCTTGCCTCTCTTGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
7068701 GACAGCGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
*
7068724 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
7068789 GACAGCGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
*
7068812 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCATTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
7068877 GACAGCGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
* *
7068900 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTACTTTCCTGCATT
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
7068965 GACAGCGAAGCAGGTCGAAGACA
66 GACAGCGAAGCAGGTCGAAGACA
* ** * * *
7068988 CAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAGTAGATATTGCCCTCCTGCATC
1 CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
7069053 GACAG
66 GACAG
7069058 TGGGGCAAAT
Statistics
Matches: 975, Mismatches: 63, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
88 891 0.91
89 84 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (88 bp):
CAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATT
GACAGCGAAGCAGGTCGAAGACA
Found at i:7069182 original size:95 final size:95
Alignment explanation
Indices: 7069081--7069445 Score: 595
Period size: 95 Copynumber: 3.8 Consensus size: 95
7069071 ATATGGCAGC
7069081 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
*
7069146 TGGAATAGATTAAAAATCGAAGATGGCAAA
66 TGGAATAGATTAAAAATCGAAGATGGTAAA
* * *
7069176 TTTTACCTCCTTGTGACTATAGTGGAGTACATTGAAGCCGATAATTCTTTCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
* *
7069241 TGGAATAGATTGAAAATCGAATATGGTAAA
66 TGGAATAGATTAAAAATCGAAGATGGTAAA
* *
7069271 TTTTACCTCCCTGTGACTACAGTAGAGTACATTTAAGCCGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
* * *
7069336 TAGAATAGATTGAAGAATCGAAGATGGTAGA
66 TGGAATAGATT-AAAAATCGAAGATGGTAAA
* * *
7069367 TTTTACCTTCCTGTGACTACAGTGGAGTACATTGAATCTGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
7069432 TGGAATAGATTAAA
66 TGGAATAGATTAAA
7069446 GATTTCAGAT
Statistics
Matches: 246, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
95 161 0.65
96 85 0.35
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (95 bp):
TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
TGGAATAGATTAAAAATCGAAGATGGTAAA
Found at i:7069441 original size:191 final size:190
Alignment explanation
Indices: 7069081--7069442 Score: 609
Period size: 191 Copynumber: 1.9 Consensus size: 190
7069071 ATATGGCAGC
*
7069081 TTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
* *
7069146 TGGAATAGATTAAAAATCGAAGATGGCAAATTTTACCTCCTTGTGACTATAGTGGAGTACATTGA
66 TAGAATAGATTAAAAATCGAAGATGGCAAATTTTACCTCCTTGTGACTACAGTGGAGTACATTGA
*
7069211 AGCCGATAATTCTTTCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAATATGGTAAA
131 AGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAATATGGTAAA
*
7069271 TTTTACCTCCCTGTGACTACAGTAGAGTACATTTAAGCCGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
* * *
7069336 TAGAATAGATTGAAGAATCGAAGATGGTAGATTTTACCTTCC-TGTGACTACAGTGGAGTACATT
66 TAGAATAGATT-AAAAATCGAAGATGGCAAATTTTACC-TCCTTGTGACTACAGTGGAGTACATT
* *
7069400 GAATCTGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATT
129 GAAGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATT
7069443 AAAGATTTCA
Statistics
Matches: 160, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
190 73 0.46
191 84 0.52
192 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (190 bp):
TTTTACCTCCCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
TAGAATAGATTAAAAATCGAAGATGGCAAATTTTACCTCCTTGTGACTACAGTGGAGTACATTGA
AGCCGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAAATCGAATATGGTAAA
Found at i:7069478 original size:44 final size:44
Alignment explanation
Indices: 7069430--7069523 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
7069420 CCTGGTTGGC
* *
7069430 AGTGGAATAGATTAAAGATTTCAGA-TCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTAAAGATTGCAGATTC-TATCACCCTAAGCAGT
* * * * *
7069474 AGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCTTAAGCAGT
1 AGTGGAATAGATTAAAGATTGCAGATTCTATCACCCTAAGCAGT
7069518 AGTGGA
1 AGTGGA
7069524 GCGGATCGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (44 bp):
AGTGGAATAGATTAAAGATTGCAGATTCTATCACCCTAAGCAGT
Found at i:7070238 original size:132 final size:132
Alignment explanation
Indices: 7069458--7070216 Score: 1304
Period size: 132 Copynumber: 5.8 Consensus size: 132
7069448 TTTCAGATCT
* *
7069458 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCTTAAGCAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* *
7069523 AGCGGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGGTTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
7069588 CC
131 CC
* *
7069590 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAATATTGCAGATTCTGTCACCCTAAGAAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
*
7069655 AGCAAATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
7069720 CC
131 CC
*
7069722 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCTTAAGCAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
* * *
7069787 AGCGGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGGTTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
7069852 CC
131 CC
* * *
7069854 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGTAGTAGTAG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
7069919 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
7069984 CC
131 CC
* * * *
7069986 TATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTTACCCTAAGCAATAGTAG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
*
7070051 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTAGT
66 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
7070116 CC
131 CC
* * *
7070118 TATCACCCTAAGCAGTAGGGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAACAGTAGTGG
1 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
7070183 AGCAGATCGAAGAT-GTAGAATCTTATCTTCCCAA
66 AGCAGATCGAAGATGGT-GAATCTTATCTTCCCAA
7070217 GGTAGTAAGA
Statistics
Matches: 594, Mismatches: 32, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
131 2 0.00
132 592 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
AGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGT
CC
Found at i:7071602 original size:3 final size:3
Alignment explanation
Indices: 7071594--7071652 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7071584 ATCTAATCCT
7071594 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7071642 TTA TTA TTA TT
1 TTA TTA TTA TT
7071653 GTTGTTGTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7071657 original size:3 final size:3
Alignment explanation
Indices: 7071651--7071682 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7071641 ATTATTATTA
*
7071651 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
7071683 ATTGCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:7071683 original size:9 final size:9
Alignment explanation
Indices: 7071645--7071686 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
7071635 ATTATTATTA
*
7071645 TTATTATTG
1 TTATTGTTG
*
7071654 TTGTTGTTG
1 TTATTGTTG
*
7071663 TTGTTGTTG
1 TTATTGTTG
7071672 TTATTGTTG
1 TTATTGTTG
7071681 TTATTG
1 TTATTG
7071687 CATTTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.10, C:0.00, G:0.24, T:0.67
Consensus pattern (9 bp):
TTATTGTTG
Found at i:7076190 original size:22 final size:23
Alignment explanation
Indices: 7076165--7076208 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7076155 AAAATTTTGA
*
7076165 TTTTATTCTT-TAAAAATTACAT
1 TTTTATTATTGTAAAAATTACAT
7076187 TTTTATTATTGTAAAAATTACA
1 TTTTATTATTGTAAAAATTACA
7076209 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTATTATTGTAAAAATTACAT
Found at i:7076213 original size:22 final size:22
Alignment explanation
Indices: 7076166--7076213 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7076156 AAATTTTGAT
* *
7076166 TTTATTCTTTAAAAATTACATT
1 TTTATTATTTAAAAATTACATA
7076188 TTTATTATTGTAAAAATTACA-A
1 TTTATTATT-TAAAAATTACATA
7076210 TTTA
1 TTTA
7076214 ATTTTGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATTATTTAAAAATTACATA
Found at i:7077348 original size:3 final size:3
Alignment explanation
Indices: 7077340--7077421 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
7077330 TATGCGTAGG
* *
7077340 ATA ATA ATA ATA ATA TATC AT- ATA ATA ATA A-A CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7077384 CAGTA ATA GA-A ATA ATA TTA ACA ATA TTA ATA A-A ATA A
1 -A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7077422 ACTAAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
2 6 0.10
3 49 0.79
4 5 0.08
5 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7078035 original size:17 final size:17
Alignment explanation
Indices: 7077999--7078046 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
7077989 TCTATTTTCT
*
7077999 AAAGAAAAACAACCAATA
1 AAAGAAAAA-AAACAATA
*
7078017 AAAGAAAAAAAACAGTA
1 AAAGAAAAAAAACAATA
*
7078034 AAGGAAAGAAAAA
1 AAAGAAA-AAAAA
7078047 TCGAAACACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.04
Consensus pattern (17 bp):
AAAGAAAAAAAACAATA
Found at i:7079087 original size:19 final size:19
Alignment explanation
Indices: 7079060--7079102 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7079050 TGAAAATAAC
*
7079060 TTTTAAAAAATAATT-TATT
1 TTTTGAAAAAT-ATTATATT
*
7079079 TTTTGAAAAATTTTATATT
1 TTTTGAAAAATATTATATT
7079098 TTTTG
1 TTTTG
7079103 GTGTTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTGAAAAATATTATATT
Found at i:7090889 original size:4 final size:4
Alignment explanation
Indices: 7090880--7090922 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
7090870 TAATAGGCAC
7090880 ATAA ATAA ATAA ATAA AT-A ATAACA ATAA ATAAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA AT-A-A ATAA AT-AA ATAA ATAA A
7090923 ATTATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.09
4 24 0.69
5 5 0.14
6 3 0.09
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:7090916 original size:9 final size:9
Alignment explanation
Indices: 7090880--7090924 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
7090870 TAATAGGCAC
7090880 ATAAAT-AA
1 ATAAATAAA
7090888 ATAAAT-AA
1 ATAAATAAA
7090896 AT-AATAACA
1 ATAAATAA-A
7090905 ATAAATAAA
1 ATAAATAAA
7090914 ATAAATAAA
1 ATAAATAAA
7090923 AT
1 AT
7090925 TATAAAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 3 0.09
8 11 0.32
9 15 0.44
10 5 0.15
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAAATAAA
Found at i:7091180 original size:3 final size:3
Alignment explanation
Indices: 7091165--7091327 Score: 102
Period size: 3 Copynumber: 55.0 Consensus size: 3
7091155 GATAGTTGTG
* * *
7091165 ATA ATA TTA ATA ATA A-A AGTA ATA CTA ATA ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
7091210 ACA AAA ATA ATA GTA ATA A-A AGTA ATA AAA ATA ATA CT- ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * ** *
7091254 ATG ATG ACG TTA ATA ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * *
7091299 CTA CTA ATA ATA AAA ATA ATG ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7091328 GCAAAGATAT
Statistics
Matches: 123, Mismatches: 29, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
2 9 0.07
3 108 0.88
4 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7101702 original size:13 final size:14
Alignment explanation
Indices: 7101684--7101713 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7101674 GTGTTAGAGT
7101684 AAAAATATTTTT-A
1 AAAAATATTTTTGA
7101697 AAAAATATTTTTGA
1 AAAAATATTTTTGA
7101711 AAA
1 AAA
7101714 TTTTGAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AAAAATATTTTTGA
Found at i:7101889 original size:24 final size:28
Alignment explanation
Indices: 7101856--7101935 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 28
7101846 GAAATATAAA
7101856 AAATATTTT-AT-TATAAT-TT-ATTGTT
1 AAATATTTTAATATATAATATTAATT-TT
7101881 -AATATTTTAATATATAATATTAATTTT
1 AAATATTTTAATATATAATATTAATTTT
7101908 AAATATTTTTAAGTA-ATTAATATTAATT
1 AAATA-TTTTAA-TATA-TAATATTAATT
7101936 ATTTATTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
24 8 0.17
25 2 0.04
26 6 0.13
27 4 0.09
28 7 0.15
29 7 0.15
30 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
AAATATTTTAATATATAATATTAATTTT
Found at i:7121935 original size:3 final size:3
Alignment explanation
Indices: 7121927--7122000 Score: 69
Period size: 3 Copynumber: 23.7 Consensus size: 3
7121917 TTAATTAGTT
* * *
7121927 TTA TTA TTA TTA TTA TTA TTA TTG TCA TTA TTA TT- GTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
7121972 TTA TTA CTTA CCTTA TTA TTA TTT TTA TT
1 TTA TTA -TTA --TTA TTA TTA TTA TTA TT
7122001 TACCCATTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 49 0.83
4 5 0.08
5 4 0.07
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7122011 original size:21 final size:20
Alignment explanation
Indices: 7121964--7122012 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
7121954 TTATTATTGT
7121964 ATTTATTATTATTACTTACC
1 ATTTATTATTATTACTTACC
* * *
7121984 TTATTATTATTTTTATTTACCC
1 AT-TTATTATTATTACTTA-CC
7122006 ATTTATT
1 ATTTATT
7122013 CTCCTTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATTATTATTACTTACC
Found at i:7122152 original size:14 final size:14
Alignment explanation
Indices: 7122133--7122168 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7122123 TTTTGTAAAT
7122133 ATATATATACTTAC
1 ATATATATACTTAC
* *
7122147 ATATATATATTTAT
1 ATATATATACTTAC
7122161 ATATATAT
1 ATATATAT
7122169 TTAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATATACTTAC
Found at i:7122162 original size:12 final size:12
Alignment explanation
Indices: 7122132--7122186 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
7122122 CTTTTGTAAA
7122132 TATATATATACTT
1 TATATATATA-TT
*
7122145 ACATATATATATT
1 -TATATATATATT
7122158 TATATATATATT
1 TATATATATATT
7122170 TA-ATA-AT-TT
1 TATATATATATT
7122179 TATA-ATAT
1 TATATATAT
7122187 GTATATAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 5 0.14
10 5 0.14
11 3 0.08
12 13 0.35
13 2 0.05
14 9 0.24
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATATATATT
Found at i:7130596 original size:2 final size:2
Alignment explanation
Indices: 7130589--7130621 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7130579 TAACAAAGAG
7130589 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7130622 CCTTCCCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7134157 original size:19 final size:20
Alignment explanation
Indices: 7134121--7134159 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7134111 GAATAATGAT
*
7134121 TTAAACTTAATTAGAAGCAA
1 TTAAACTTAATAAGAAGCAA
*
7134141 TTAAAC-TAATAATAAGCAA
1 TTAAACTTAATAAGAAGCAA
7134160 ATACAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (20 bp):
TTAAACTTAATAAGAAGCAA
Found at i:7134636 original size:19 final size:21
Alignment explanation
Indices: 7134601--7134642 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
7134591 ATGCATGTAT
7134601 ATAAAAACATAAAGTATAAAA
1 ATAAAAACATAAAGTATAAAA
7134622 ATAAAAA-AT-AAGTATAAAA
1 ATAAAAACATAAAGTATAAAA
7134641 AT
1 AT
7134643 TAAAGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 2 0.10
21 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
ATAAAAACATAAAGTATAAAA
Found at i:7135415 original size:14 final size:15
Alignment explanation
Indices: 7135396--7135425 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7135386 GTATACAATA
7135396 TGTGTGT-TTTTTTT
1 TGTGTGTGTTTTTTT
7135410 TGTGTGTGTTTTTTT
1 TGTGTGTGTTTTTTT
7135425 T
1 T
7135426 CTTTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (15 bp):
TGTGTGTGTTTTTTT
Found at i:7141809 original size:2 final size:2
Alignment explanation
Indices: 7141802--7141826 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7141792 GTCAAAATTT
7141802 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
7141827 TCGATATTAT
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:7145709 original size:12 final size:12
Alignment explanation
Indices: 7145692--7145717 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7145682 AGAAAGATAA
7145692 TGTGTGGTATCG
1 TGTGTGGTATCG
7145704 TGTGTGGTATCG
1 TGTGTGGTATCG
7145716 TG
1 TG
7145718 CTACCTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.42, T:0.42
Consensus pattern (12 bp):
TGTGTGGTATCG
Found at i:7148922 original size:67 final size:67
Alignment explanation
Indices: 7148814--7148949 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
7148804 TGTGTATTAA
7148814 TGGAACATCACATGTAATCCATTGCATTATCTTTGCATTTAGCAGAAACAGACTCAACAAAATTA
1 TGGAACATCACATGTAATCCATTGCATTATCTTTGCATTTAGCAGAAACAGACTCAACAAAATTA
7148879 CC
66 CC
7148881 TGGAACATCACATGTAATCCATTGCATTATCTTTGCATTTAGCAGAAACAGACTCAACAAAATTA
1 TGGAACATCACATGTAATCCATTGCATTATCTTTGCATTTAGCAGAAACAGACTCAACAAAATTA
7148946 CC
66 CC
7148948 TG
1 TG
7148950 TTCCATTTCC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (67 bp):
TGGAACATCACATGTAATCCATTGCATTATCTTTGCATTTAGCAGAAACAGACTCAACAAAATTA
CC
Found at i:7151532 original size:14 final size:15
Alignment explanation
Indices: 7151513--7151541 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7151503 TTCACTCATC
7151513 ATTTTTCT-TTTTGT
1 ATTTTTCTCTTTTGT
7151527 ATTTTTCTCTTTTGT
1 ATTTTTCTCTTTTGT
7151542 TTTATGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (15 bp):
ATTTTTCTCTTTTGT
Found at i:7151958 original size:16 final size:16
Alignment explanation
Indices: 7151934--7151965 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7151924 TCATCCTATG
*
7151934 ACACGCTTTATACGTT
1 ACACACTTTATACGTT
7151950 ACACACTTTATACGTT
1 ACACACTTTATACGTT
7151966 TTCATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (16 bp):
ACACACTTTATACGTT
Found at i:7152820 original size:15 final size:15
Alignment explanation
Indices: 7152800--7152828 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7152790 TTCCTTCGAG
7152800 TGGTAAGGCTAGTCA
1 TGGTAAGGCTAGTCA
7152815 TGGTAAGGCTAGTC
1 TGGTAAGGCTAGTC
7152829 TATCAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (15 bp):
TGGTAAGGCTAGTCA
Found at i:7160069 original size:22 final size:24
Alignment explanation
Indices: 7160043--7160086 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7160033 GAAAAATATT
7160043 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
7160065 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
7160087 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:7160233 original size:68 final size:66
Alignment explanation
Indices: 7160153--7160294 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
7160143 TCAAGTTTAT
* *
7160153 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATATAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
7160218 AAA
64 AAA
7160221 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
7160286 T
66 A
7160287 TTTACTAA
1 TTTACTAA
7160295 CAATTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 43 0.61
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:7160304 original size:16 final size:16
Alignment explanation
Indices: 7160283--7160324 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7160273 AATAATTTGA
*
7160283 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
7160299 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
7160315 TAGTTTTAAT
1 TAATTTTAAT
7160325 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:7166728 original size:18 final size:17
Alignment explanation
Indices: 7166703--7166738 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7166693 GAGTGGCTTA
*
7166703 GCTTGAAAAAGAAAAAC
1 GCTTGAAAAAAAAAAAC
7166720 GCTTGGAAAAAAAAAAAC
1 GCTT-GAAAAAAAAAAAC
7166738 G
1 G
7166739 GACAATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.58, C:0.11, G:0.19, T:0.11
Consensus pattern (17 bp):
GCTTGAAAAAAAAAAAC
Found at i:7167513 original size:151 final size:150
Alignment explanation
Indices: 7167225--7167885 Score: 827
Period size: 151 Copynumber: 4.3 Consensus size: 150
7167215 GTAAAATAAT
*
7167225 AAAATAGTATATTTTTTAAAAGTAATAAAATCCGGGGGAAAAAATACGAACAAAGGGCCGAAATA
1 AAAATA-TAT-TTTTTTAAAAGTAATAAAATCC--GGAAAAAAATACGAACAAAGGGCCGAAAT-
*
7167290 AAGGTTTTTTACTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTA
61 AAGGTTTTTT--TAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAAATAATGTACTA
7167355 AAATAATGTAAAATAATAAAATTAGAA
124 AAATAATGTAAAATAATAAAATTAGAA
* * *
7167382 AAAATATATTTTTATTGAAAGTAATAAAATTCGGAAAAAAATACAAACAAAGGGCC-AGAATAAG
1 AAAATATATTTTT-TTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGA-AATAAG
*
7167446 GTTTTTTTTAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAAATAATGTACTAAAATA
64 GTTTTTTTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAAATAATGTACTAAAATA
7167511 ATGTAAAATAATAAAATTAGAA
129 ATGTAAAATAATAAAATTAGAA
* * **
7167533 AACATTATATTTTTTT-AAAGTAATAAACTTTGGAGAAAAAATACGAACAAAGGGCCGAAATAAG
1 AA-AATATATTTTTTTAAAAGTAATAAAATCCGGA-AAAAAATACGAACAAAGGGCCGAAATAA-
* *
7167597 GGTTTTTTTAAAATTTATTTAAAAAACAC--TAAATTAATACATTTCAAACATGATGTACTAAAA
63 GGTTTTTTT-AAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAAATAATGTACTAAAA
*
7167660 TAATGTAAAATAATAAAA-TACAAA
127 TAATGTAAAATAATAAAATTA-GAA
* * *
7167684 AATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGAATAAATGGCCGAAATAA
1 AA-AATATATTTTT-TTAAAAGTAATAAAATCC-GGAAAAAAATACGAACAAAGGGCCGAAAT-A
* ** * * *
7167749 AGATTTAATT-ACTTTCA-ATAAAAAACACACTAAATTAATACATTT-AAAATATAATGTACTAA
62 AGGTTTTTTTAAATTT-ATTTAAAAAACACAGTAAATTAATACATTTCAAAA-ATAATGTACTAA
* *
7167811 AATAATGTAAAATTAGAAAATTAGAA
125 AATAATGTAAAATAATAAAATTAGAA
* *
7167837 AATAT-TATATTTTTTAAAAGTAATAAAATCCGGAAAAAAAATATGAACA
1 AAAATATAT-TTTTTTAAAAGTAATAAAATCCGG-AAAAAAATACGAACA
7167886 GGGGGCCAAA
Statistics
Matches: 450, Mismatches: 35, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
150 20 0.04
151 218 0.48
152 32 0.07
153 119 0.26
154 32 0.07
155 4 0.01
156 19 0.04
157 6 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (150 bp):
AAAATATATTTTTTTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGT
TTTTTTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAAATAATGTACTAAAATAAT
GTAAAATAATAAAATTAGAA
Found at i:7167788 original size:304 final size:303
Alignment explanation
Indices: 7167086--7167885 Score: 1099
Period size: 304 Copynumber: 2.6 Consensus size: 303
7167076 TTTAGTGTGT
*
7167086 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCAAAATAATTTTGTTTT
1 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCC-AAATAA---AG-TTT
** *
7167151 TAAAAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATG
61 T-AATTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAAAATAATGTACTAAAATAATG
*
7167216 TAAAATAATAAAA-TAG------TATATTTTTTAAAAGTAATAAAATCCGGGGGAAAAAATACGA
125 TAAAATAATAAAATTAGAAAAATTATATTTTTTAAAAGTAATAAAATCCGGGAGAAAAAATACGA
7167274 ACAAAGGGCCGAAATAAAGGTTTTTTACTAAATTTATTTAAAAAACACAGTAAATTAATACATTT
190 ACAAAGGGCCGAAATAAAGGTTTTTTAC-AAATTTATTTAAAAAACACA-TAAATTAATACATTT
*
7167339 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAAATATA
253 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAAAATATA
* * **
7167390 TTTTTATTGAAAGTAATAAAATTC-GGAAAAAAATACAAACAAAGGGCCAGAATAAGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCA-AATAAAGTTTTAAT
*
7167454 TAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAAATAATGTACTAAAATAATGTAAAA
65 TAATTTATTTAAAAAACACACTAAATTAATACATTTCAAAAATAATGTACTAAAATAATGTAAAA
* * **
7167519 TAATAAAATTAGAAAACATTATATTTTTTTAAAGTAATAAACT-TTGGAGAAAAAATACGAACAA
130 TAATAAAATTAGAAAA-ATTATATTTTTTAAAAGTAATAAAATCCGGGAGAAAAAATACGAACAA
*
7167583 AGGGCCGAAATAAGGGTTTTTTTA-AAATTTATTTAAAAAACAC-TAAATTAATACATTTCAAAC
194 AGGGCCGAAATAAAGG-TTTTTTACAAATTTATTTAAAAAACACATAAATTAATACATTTCAAAC
*
7167646 ATGATGTACTAAAATAATGTAAAATAATAAAA-TACAAAAATAATATA
258 ATAATGTACTAAAATAATGTAAAATAATAAAATTA-AAAAA-AATATA
* * * *
7167693 TTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGAATAAATGGCCGAAATAAAGATTTAAT
1 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCC-AAATAAAGTTTTAAT
* *
7167758 TACTTTCA-ATAAAAAACACACTAAATTAATACATTT-AAAATATAATGTACTAAAATAATGTAA
65 TAATTT-ATTTAAAAAACACACTAAATTAATACATTTCAAAA-ATAATGTACTAAAATAATGTAA
* * * *
7167821 AATTAGAAAATTAGAAAATATTATATTTTTTAAAAGTAATAAAATCC-GGAAAAAAAATATGAAC
128 AATAATAAAATTAGAAAA-ATTATATTTTTTAAAAGTAATAAAATCCGGGAGAAAAAATACGAAC
7167885 A
192 A
7167886 GGGGGCCAAA
Statistics
Matches: 444, Mismatches: 35, Indels: 34
0.87 0.07 0.07
Matches are distributed among these distances:
298 70 0.16
299 7 0.02
300 1 0.00
301 2 0.00
302 56 0.13
303 61 0.14
304 183 0.41
305 35 0.08
306 29 0.07
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (303 bp):
TTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCAAATAAAGTTTTAATT
AATTTATTTAAAAAACACACTAAATTAATACATTTCAAAAATAATGTACTAAAATAATGTAAAAT
AATAAAATTAGAAAAATTATATTTTTTAAAAGTAATAAAATCCGGGAGAAAAAATACGAACAAAG
GGCCGAAATAAAGGTTTTTTACAAATTTATTTAAAAAACACATAAATTAATACATTTCAAACATA
ATGTACTAAAATAATGTAAAATAATAAAATTAAAAAAAATATA
Found at i:7170079 original size:112 final size:109
Alignment explanation
Indices: 7169867--7170086 Score: 377
Period size: 112 Copynumber: 2.0 Consensus size: 109
7169857 TTAATAGTAG
* *
7169867 TGACTAATTTGTACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAATAGAGTGACCAAAAT
1 TGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAATAGAGTGACCAAAAT
*
7169932 AGGACAGACCCTATTTTAGAGTGATCATGGGTGTAATTTATCCA
66 AGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATTTATCCA
*
7169976 TGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAAATATGGAGTGGCCAA
1 TGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAG-AAAAAATA--GAGTGACCAA
7170041 AATAGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATTTATCC
63 AATAGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATTTATCC
7170087 TTATTTTTAT
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
109 42 0.40
110 8 0.08
112 54 0.52
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (109 bp):
TGACTAATTCGCACAATTATCTTATTTAGAGTGACTAAATTAAGAAAAAATAGAGTGACCAAAAT
AGGACAAACCCTATTTTAGAGTGATCATGGGTGTAATTTATCCA
Found at i:7170529 original size:2 final size:2
Alignment explanation
Indices: 7170522--7170560 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
7170512 CAATCCAACC
* *
7170522 TA TA TA TA TA CA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7170561 TAATTAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7171497 original size:14 final size:13
Alignment explanation
Indices: 7171441--7171504 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 13
7171431 CCAAACCCCT
*
7171441 AACTTGAACCCCA
1 AACTTGAACCTCA
*
7171454 AACATTCAACCTCA
1 AAC-TTGAACCTCA
** *
7171468 AACTCAAACCTTA
1 AACTTGAACCTCA
7171481 AATCTTGAACCTCA
1 AA-CTTGAACCTCA
7171495 AATCTTGAAC
1 AA-CTTGAAC
7171505 TGTAACACCC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 12 0.29
14 29 0.71
ACGTcount: A:0.41, C:0.31, G:0.05, T:0.23
Consensus pattern (13 bp):
AACTTGAACCTCA
Found at i:7172176 original size:45 final size:46
Alignment explanation
Indices: 7172103--7172214 Score: 176
Period size: 46 Copynumber: 2.5 Consensus size: 46
7172093 CTTACGTATG
*
7172103 ACCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
7172146 ACCACTTATCTCTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
7172192 ACCACTTATCACTTTTTCACTTG
1 ACCACTTATCACTTTGTCACTTG
7172215 TCACTGGTCA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 11 0.18
44 5 0.08
45 20 0.32
46 26 0.42
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:7174574 original size:20 final size:19
Alignment explanation
Indices: 7174525--7174584 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
7174515 AGGGTTTGGG
*
7174525 GTTTAAGGTTTGGGTTTGT
1 GTTTAAGGTTTGGGTTTGA
* * *
7174544 TTTTGATGTTTGGGGTTTGA
1 GTTTAAGGTTT-GGGTTTGA
*
7174564 GTTTAAGGTTTAGGATTTGA
1 GTTTAAGGTTT-GGGTTTGA
7174584 G
1 G
7174585 ATTTTAGATT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (19 bp):
GTTTAAGGTTTGGGTTTGA
Found at i:7178974 original size:22 final size:23
Alignment explanation
Indices: 7178944--7178989 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7178934 CTACCGTTAA
7178944 AGTTATTATT-ATTTT-TATTTGG
1 AGTTATTATTGATTTTGT-TTTGG
*
7178966 AGTTTTTATTGATTTTGTTTTGG
1 AGTTATTATTGATTTTGTTTTGG
7178989 A
1 A
7178990 ATAATTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 11 0.52
24 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (23 bp):
AGTTATTATTGATTTTGTTTTGG
Found at i:7186226 original size:25 final size:25
Alignment explanation
Indices: 7186198--7186277 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
7186188 CATGTAACAA
*
7186198 GAAGCATATTTGGGCTGTATAACGG
1 GAAGCATATATGGGCTGTATAACGG
* ** * *
7186223 GAAGC-TCATATGAGCCATGTAACAG
1 GAAGCAT-ATATGGGCTGTATAACGG
**
7186248 GAAGCATATCCGGGCTGTATAACGG
1 GAAGCATATATGGGCTGTATAACGG
7186273 GAAGC
1 GAAGC
7186278 TCATAAGAGC
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (25 bp):
GAAGCATATATGGGCTGTATAACGG
Found at i:7186228 original size:50 final size:50
Alignment explanation
Indices: 7186168--7186288 Score: 188
Period size: 50 Copynumber: 2.4 Consensus size: 50
7186158 CGAACCATAG
* * **
7186168 AACGGGAAGCTCATGTGAGTCATGTAACAAGAAGCATATTTGGGCTGTAT
1 AACGGGAAGCTCATATGAGCCATGTAACAAGAAGCATATCCGGGCTGTAT
*
7186218 AACGGGAAGCTCATATGAGCCATGTAACAGGAAGCATATCCGGGCTGTAT
1 AACGGGAAGCTCATATGAGCCATGTAACAAGAAGCATATCCGGGCTGTAT
*
7186268 AACGGGAAGCTCATAAGAGCC
1 AACGGGAAGCTCATATGAGCC
7186289 TAAATCAGGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (50 bp):
AACGGGAAGCTCATATGAGCCATGTAACAAGAAGCATATCCGGGCTGTAT
Found at i:7186342 original size:24 final size:25
Alignment explanation
Indices: 7186267--7186336 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
7186257 CCGGGCTGTA
*
7186267 TAACGGGAAGCTCA-TAAGAGCC-T
1 TAACGGGAAGCTCACAAAGAGCCTT
* *
7186290 AAATCAGGAAGCTCACAAAGAGCCTT
1 TAA-CGGGAAGCTCACAAAGAGCCTT
*
7186316 TAACGGGAAGCTC-CGAAGAGC
1 TAACGGGAAGCTCACAAAGAGC
7186337 TATTAATCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.05
24 17 0.45
25 16 0.42
26 3 0.08
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCCTT
Found at i:7186514 original size:64 final size:64
Alignment explanation
Indices: 7186409--7186532 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
7186399 TCCAGAGAGC
* * *
7186409 CATATAATAGGACACTGACAAAGAGTTGCGGTATGTCCGCAACACGTGCAGGATTACTACCGAT
1 CATATAATAGGACACTGACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATAACTACCGAT
* * * *
7186473 CATATAATAGGACGCTTACAAAGAGCTGCGGTATGTTCGCAACACATGTAGGATAACTAC
1 CATATAATAGGACACTGACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATAACTAC
7186533 TGATTAGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (64 bp):
CATATAATAGGACACTGACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATAACTACCGAT
Found at i:7187493 original size:17 final size:16
Alignment explanation
Indices: 7187457--7187491 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
7187447 ATATAAATGA
7187457 TTATATTTTCATTATT
1 TTATATTTTCATTATT
7187473 TTATCATTTATCATTATT
1 TTAT-ATTT-TCATTATT
7187491 T
1 T
7187492 ATTATTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATATTTTCATTATT
Found at i:7187498 original size:17 final size:17
Alignment explanation
Indices: 7187460--7187499 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
7187450 TAAATGATTA
7187460 TATTTTCATTATTTTAT
1 TATTTTCATTATTTTAT
*
7187477 CATTTATCATTA-TTTAT
1 TATTT-TCATTATTTTAT
7187494 TATTTT
1 TATTTT
7187500 ACTTTCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTTCATTATTTTAT
Found at i:7187500 original size:18 final size:19
Alignment explanation
Indices: 7187456--7187500 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
7187446 GATATAAATG
7187456 ATTATATTT-TCATTATTTT
1 ATTAT-TTTATCATTATTTT
*
7187475 ATCA-TTTATCATTA-TTT
1 ATTATTTTATCATTATTTT
7187492 ATTATTTTA
1 ATTATTTTA
7187501 CTTTCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 9 0.41
18 10 0.45
19 3 0.14
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTATTTTATCATTATTTT
Found at i:7193048 original size:24 final size:25
Alignment explanation
Indices: 7192977--7193048 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
7192967 GTTGTATAAT
*
7192977 GGGAAGCTCAT-AAGAGCCTAAATAA-
1 GGGAAGCTCATAAAGAGCC--ATTAAC
*
7193002 -GGAAGCTCATAAAGAGCCTTTAAC
1 GGGAAGCTCATAAAGAGCCATTAAC
*
7193026 GGGAAGCTC-TGAAGAGCCATTAA
1 GGGAAGCTCATAAAGAGCCATTAA
7193049 TCAGAAGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 3 0.08
24 22 0.55
25 15 0.38
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATAAAGAGCCATTAAC
Found at i:7193228 original size:64 final size:64
Alignment explanation
Indices: 7193115--7193244 Score: 163
Period size: 64 Copynumber: 2.0 Consensus size: 64
7193105 TCCGGAAAGC
** * * *
7193115 CATATAACAGGACGTTCACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATTACTACTGAT
1 CATATAACAAAACGTTCACAAAAAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGAT
* * * *
7193179 CATATAACAAAACGCTT-ACAAAAAGCTTCGGTATGTCTGTAACATATGCAGGATCACTACCGAT
1 CATATAACAAAACG-TTCACAAAAAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGAT
7193243 CA
1 CA
7193245 GGATGCTCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 54 0.96
65 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (64 bp):
CATATAACAAAACGTTCACAAAAAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGAT
Found at i:7196978 original size:25 final size:24
Alignment explanation
Indices: 7196940--7196987 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
7196930 ACCCGAGCAA
7196940 TATAACGAGAAGCTCACAAAGAGCC
1 TATAACGAGAAGCTC-CAAAGAGCC
* * *
7196965 TATAACGGGTAGCTCTAAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
7196988 AATTAACAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCC
Found at i:7196994 original size:24 final size:24
Alignment explanation
Indices: 7196967--7197021 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
7196957 AAAGAGCCTA
* *
7196967 TAACGGGTAGCTCT-AAAGAGCAAT
1 TAACGAGTAACTCTGAAA-AGCAAT
*
7196991 TAACAAGTAACTCTGAAAAGCAAT
1 TAACGAGTAACTCTGAAAAGCAAT
7197015 TAACGAG
1 TAACGAG
7197022 AAGAACTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (24 bp):
TAACGAGTAACTCTGAAAAGCAAT
Found at i:7197128 original size:26 final size:24
Alignment explanation
Indices: 7197063--7197135 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
7197053 AAGTGAGCAC
* * *
7197063 TAACAGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCA-TAAGAGCCTA
* *
7197088 TAATCGGAAAACTCATGAAGAGCCATA
1 TAA-CGGGAAGCTCAT-AAGAGCC-TA
7197115 TAACGGGAAGCTCATAAGAGC
1 TAACGGGAAGCTCATAAGAGC
7197136 TGCGGTGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
25 9 0.24
26 25 0.66
27 4 0.11
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (24 bp):
TAACGGGAAGCTCATAAGAGCCTA
Found at i:7197609 original size:21 final size:21
Alignment explanation
Indices: 7197585--7197626 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7197575 AAATTTAACA
* *
7197585 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAAGTCACAT
*
7197606 TCAATTCAATCCAAGTCACAT
1 TCAATTCAATACAAGTCACAT
7197627 CTTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.33
Consensus pattern (21 bp):
TCAATTCAATACAAGTCACAT
Found at i:7205585 original size:24 final size:24
Alignment explanation
Indices: 7205541--7205586 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7205531 GAGTGATACC
**
7205541 AATATAGTAAAATATTTTATAAGT
1 AATATAGTAAAATATACTATAAGT
7205565 AATATAGATAAAAT-TACTATAA
1 AATATAG-TAAAATATACTATAA
7205587 AATATGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (24 bp):
AATATAGTAAAATATACTATAAGT
Found at i:7206211 original size:192 final size:191
Alignment explanation
Indices: 7205910--7206255 Score: 541
Period size: 192 Copynumber: 1.8 Consensus size: 191
7205900 CATTTAGTTC
* * ** **
7205910 TTTTAAAAATTTTAAAATAGTAAATGTAAAATTATATTTTGACCCCTTTAAAAAATATCATTTTG
1 TTTTAAAAATTTTAAAATAGTAAAAGTAAAATTATACTTTGACCCCCCTAAAAAATAAAATTTTG
* * *
7205975 ATTTAATCCTTTAAAAATTATAAATGTTTAGACTATTGAAAATTACAATTTAATTTCGGCCCCTA
66 ATTTAATCCTTTAAAAATTATAAATATTTAGACTATTAAAAATTACAATTTAATTCCGGCCCCTA
* *
7206040 AAAGTATTTTCTGGCTTCGCCCCTTAAAATAAAAAAATTATTCATTTAGTTCCTTTAAAAA
131 AAAGAATTTTCTGACTTCGCCCCTTAAAATAAAAAAATTATTCATTTAGTTCCTTTAAAAA
*
7206101 TTTT-AAAATTTTAAACTAGTAAAAGTAAAATTATACTTTGACCCCCCTAAAAATGATAAAATTT
1 TTTTAAAAATTTTAAAATAGTAAAAGTAAAATTATACTTTGACCCCCCTAAAAA--ATAAAATTT
7206165 TGATTTAATCCTTTAAAAATTATAAATATTTAGACTATTAAAAATTACAATTTAATTCCGGCCCC
64 TGATTTAATCCTTTAAAAATTATAAATATTTAGACTATTAAAAATTACAATTTAATTCCGGCCCC
* *
7206230 TAAAAGAATTTTTTGACTTCGGCCCT
129 TAAAAGAATTTTCTGACTTCGCCCCT
7206256 ACAAATCAAG
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
190 44 0.32
191 4 0.03
192 91 0.65
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.39
Consensus pattern (191 bp):
TTTTAAAAATTTTAAAATAGTAAAAGTAAAATTATACTTTGACCCCCCTAAAAAATAAAATTTTG
ATTTAATCCTTTAAAAATTATAAATATTTAGACTATTAAAAATTACAATTTAATTCCGGCCCCTA
AAAGAATTTTCTGACTTCGCCCCTTAAAATAAAAAAATTATTCATTTAGTTCCTTTAAAAA
Found at i:7207679 original size:2 final size:2
Alignment explanation
Indices: 7207672--7207710 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7207662 ATTATAATTC
7207672 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
7207711 CTCACACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:7212525 original size:24 final size:24
Alignment explanation
Indices: 7212508--7212559 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
7212498 TTATTATTTT
7212508 AAATATTCAAAAATTTATAATTATA
1 AAATATT-AAAAATTTATAATTATA
* * *
7212533 AAATATTAAAAATATAAAATTAGA
1 AAATATTAAAAATTTATAATTATA
7212557 AAA
1 AAA
7212560 ACAAAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATTAAAAATTTATAATTATA
Found at i:7213372 original size:6 final size:6
Alignment explanation
Indices: 7213361--7213392 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
7213351 CCGTGCACGG
7213361 CGGCGC CGGCGC CGGCGC CGGCGAC CGGCGC C
1 CGGCGC CGGCGC CGGCGC CGGCG-C CGGCGC C
7213393 CGGTACGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.03, C:0.50, G:0.47, T:0.00
Consensus pattern (6 bp):
CGGCGC
Found at i:7214861 original size:24 final size:24
Alignment explanation
Indices: 7214834--7214881 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7214824 AAATTGTGCC
7214834 CCAACGTATTGGGTTGCGATTTCT
1 CCAACGTATTGGGTTGCGATTTCT
7214858 CCAACGTATTGGGTTGCGATTTCT
1 CCAACGTATTGGGTTGCGATTTCT
7214882 TCATTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (24 bp):
CCAACGTATTGGGTTGCGATTTCT
Found at i:7216566 original size:19 final size:18
Alignment explanation
Indices: 7216525--7216567 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
7216515 GTCTCTTTTT
7216525 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
7216544 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
7216563 TGCAT
1 TGCAT
7216568 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:7218478 original size:8 final size:8
Alignment explanation
Indices: 7218465--7218524 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
7218455 GTTCAGACTA
7218465 AAAAAAAC
1 AAAAAAAC
*
7218473 AAAAAAAT
1 AAAAAAAC
*
7218481 AAAAATA-
1 AAAAAAAC
**
7218488 AAAAATTC
1 AAAAAAAC
7218496 AAAAAAATC
1 AAAAAAA-C
*
7218505 AAAAAAAT
1 AAAAAAAC
7218513 AAAAAAATC
1 AAAAAAA-C
7218522 AAA
1 AAA
7218525 GTCAATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
7 6 0.14
8 25 0.60
9 11 0.26
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAC
Found at i:7218485 original size:17 final size:17
Alignment explanation
Indices: 7218463--7218524 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
7218453 GAGTTCAGAC
7218463 TAAAAAAAACAAAAAAA
1 TAAAAAAAACAAAAAAA
* *
7218480 T---AAAAATAAAAAAT
1 TAAAAAAAACAAAAAAA
*
7218494 TCAAAAAAATCAAAAAAA
1 T-AAAAAAAACAAAAAAA
*
7218512 TAAAAAAATCAAA
1 TAAAAAAAACAAA
7218525 GTCAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
14 12 0.33
17 13 0.36
18 11 0.31
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (17 bp):
TAAAAAAAACAAAAAAA
Found at i:7220750 original size:88 final size:88
Alignment explanation
Indices: 7220601--7221745 Score: 1826
Period size: 88 Copynumber: 13.0 Consensus size: 88
7220591 AACAAATCAG
* * * * *
7220601 TGAAGACAACAGATCTTACCTTCATGCATTGACGGTGAAGCAGGTCGAAGACAAAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7220666 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7220689 TGAAGACAAAAGATTTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7220754 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
7220777 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
7220842 CTCTCGGTTGTGATGAAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7220865 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTACCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7220930 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7220953 TGAAGACAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7221018 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7221041 TGAAGACAACAGATCTTACCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
7221106 CCCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
7221129 TGAAGACAACAGATATTACCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7221194 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7221217 TGAAGACAAAAGATATTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7221282 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7221305 TGAAGACAATAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7221370 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
7221393 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAATCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7221458 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
7221481 TGAAAACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
7221546 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * * *
7221569 TGAGGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATTGAAGACACAAGCCTTACCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* * *
7221634 CCCTCGGTTGT-AGTGGAGCAGAT
66 CTCTCGGTTGTGA-TGGAGCTGGT
** * * * * * * *
7221657 CAAAGATAGCAGATCTTGCCCTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
** *
7221722 -TCCTCGGTTGCAATGGAGCAGGT
66 CT-CTCGGTTGTGATGGAGCTGGT
7221745 T
1 T
7221746 AATGGCAGAT
Statistics
Matches: 986, Mismatches: 68, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
87 1 0.00
88 984 1.00
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:7225293 original size:29 final size:29
Alignment explanation
Indices: 7225246--7225303 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
7225236 CAATTATTAA
*
7225246 ATAAAATAAAATTATAAAA-ATTATAAAAT
1 ATAAAATAAAACTATAAAACA-TATAAAAT
7225275 ATAAATATAAAACTA-AAAACATATAAAAT
1 ATAAA-ATAAAACTATAAAACATATAAAAT
7225304 TTGTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (29 bp):
ATAAAATAAAACTATAAAACATATAAAAT
Found at i:7232239 original size:3 final size:3
Alignment explanation
Indices: 7232233--7232257 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7232223 AAAAATGATG
7232233 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7232258 CAAAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7234913 original size:42 final size:42
Alignment explanation
Indices: 7234854--7235140 Score: 259
Period size: 42 Copynumber: 7.5 Consensus size: 42
7234844 AATGATTCGG
*
7234854 GGAATCAGTACTTAGCAACCCCTTTCACATTCAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
* * *
7234896 GGAATCAACACTTAGCAACCAC--T-A-A-T---GATTCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
* *
7234929 GGAATTAGCACTTAGCAACCCCTTTCACATTCAAGTTACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
* *
7234971 GGAATCAGCACTTAGCAACCAC---CA-A-T---GATTCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
* *
7235004 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGTTACGAT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
* *
7235046 GGAATCAGCACTTAGCAACCAC---CA-A-T---GATTCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
* *
7235079 GGAATCAGCACTTAACAACCCCTTTCACATTCAAGTTACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
7235121 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
7235141 ACCAATGATT
Statistics
Matches: 192, Mismatches: 26, Indels: 54
0.71 0.10 0.20
Matches are distributed among these distances:
33 60 0.31
34 15 0.08
35 1 0.01
36 5 0.03
37 6 0.03
38 6 0.03
39 5 0.03
40 1 0.01
41 14 0.07
42 79 0.41
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGATACGGT
Found at i:7234928 original size:75 final size:75
Alignment explanation
Indices: 7234741--7235177 Score: 757
Period size: 75 Copynumber: 5.8 Consensus size: 75
7234731 ATCCATTACT
* * *
7234741 CGGTGGATTCAGGACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
7234806 ATTCAAAGATA
66 ATTC-AAGTTA
*
7234817 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGTACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
7234882 ATTCAAGATA
66 ATTCAAGTTA
* * *
7234892 CGGTGGAATCAACACTTAGCAACCACTAATGATTCGGGGAATTAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
7234957 ATTCAAGTTA
66 ATTCAAGTTA
7234967 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
7235032 ATTCAAGTTA
66 ATTCAAGTTA
* *
7235042 CGATGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAACAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
7235107 ATTCAAGTTA
66 ATTCAAGTTA
*
7235117 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
7235178 GGAGGAATCA
Statistics
Matches: 344, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
75 279 0.81
76 65 0.19
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGTTA
Found at i:7235834 original size:12 final size:13
Alignment explanation
Indices: 7235805--7235837 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7235795 CCAAACTTTG
*
7235805 AAATTTTCGAACA
1 AAATTTTCGAAAA
7235818 AAATTTTC-AAAA
1 AAATTTTCGAAAA
7235830 AAATTTTC
1 AAATTTTC
7235838 CGCGAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (13 bp):
AAATTTTCGAAAA
Found at i:7239205 original size:40 final size:40
Alignment explanation
Indices: 7239150--7239230 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
7239140 GTTCTTCGAG
*
7239150 TAACTTCTTCAATCTTCTTTGTGTGCTCCCTTAGATCTTT
1 TAACTTCTTCAATCTTCTCTGTGTGCTCCCTTAGATCTTT
*
7239190 TAACTTCTTCAATCTTCTCTGTGTGCTCCCTTAGATTTTT
1 TAACTTCTTCAATCTTCTCTGTGTGCTCCCTTAGATCTTT
7239230 T
1 T
7239231 TCTAATTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.15, C:0.25, G:0.10, T:0.51
Consensus pattern (40 bp):
TAACTTCTTCAATCTTCTCTGTGTGCTCCCTTAGATCTTT
Found at i:7240940 original size:37 final size:37
Alignment explanation
Indices: 7240899--7240976 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
7240889 AACTAAAATT
7240899 AAAATTAAATCAATCAATTCTATTAAAAATGAACCAA
1 AAAATTAAATCAATCAATTCTATTAAAAATGAACCAA
7240936 AAAATTAAATCAATCAATTCTATTAAAAATGAACCAA
1 AAAATTAAATCAATCAATTCTATTAAAAATGAACCAA
7240973 AAAA
1 AAAA
7240977 AAATATCTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.26
Consensus pattern (37 bp):
AAAATTAAATCAATCAATTCTATTAAAAATGAACCAA
Found at i:7242122 original size:11 final size:11
Alignment explanation
Indices: 7242106--7242140 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7242096 AACAAAAGGT
7242106 TATAAAATAAA
1 TATAAAATAAA
7242117 TATAAAATAAA
1 TATAAAATAAA
* *
7242128 AACAAAATAAA
1 TATAAAATAAA
7242139 TA
1 TA
7242141 AAAGATGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
TATAAAATAAA
Found at i:7244010 original size:18 final size:18
Alignment explanation
Indices: 7243987--7244031 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
7243977 ATGTTTGTTC
7243987 ACACGATCTCAAGGAGTT
1 ACACGATCTCAAGGAGTT
7244005 ACACGATCTCAAGGAGTT
1 ACACGATCTCAAGGAGTT
7244023 ACACGATCT
1 ACACGATCT
7244032 AGTGACACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (18 bp):
ACACGATCTCAAGGAGTT
Found at i:7247840 original size:16 final size:16
Alignment explanation
Indices: 7247821--7247851 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7247811 GTTAAAAATA
7247821 ATATAACTTTTATAAT
1 ATATAACTTTTATAAT
7247837 ATATAACTTTTATAA
1 ATATAACTTTTATAA
7247852 AAAAATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAACTTTTATAAT
Found at i:7250696 original size:24 final size:24
Alignment explanation
Indices: 7250658--7250744 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
7250648 TTAGTCATTT
*
7250658 TATTAAAAATTCTATTCATTTCTAG
1 TATTAAAAA-CCTATTCATTTCTAG
* ** * *
7250683 TATTAAAAACCTATCCACATATAA
1 TATTAAAAACCTATTCATTTCTAG
* **
7250707 TA-GAATAATTCTATTCATTTCTAG
1 TATTAA-AAACCTATTCATTTCTAG
7250731 TATTAAAAACCTAT
1 TATTAAAAACCTAT
7250745 CCACATATAA
Statistics
Matches: 43, Mismatches: 17, Indels: 5
0.66 0.26 0.08
Matches are distributed among these distances:
23 2 0.05
24 30 0.70
25 11 0.26
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.40
Consensus pattern (24 bp):
TATTAAAAACCTATTCATTTCTAG
Found at i:7250736 original size:48 final size:48
Alignment explanation
Indices: 7250665--7250763 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
7250655 TTTTATTAAA
7250665 AATTCTATTCATTTCTAGTATTAAAAACCTATCCACATATAATAGAAT
1 AATTCTATTCATTTCTAGTATTAAAAACCTATCCACATATAATAGAAT
7250713 AATTCTATTCATTTCTAGTATTAAAAACCTATCCACATATAATAGAAT
1 AATTCTATTCATTTCTAGTATTAAAAACCTATCCACATATAATAGAAT
7250761 AAT
1 AAT
7250764 ATACGCATGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.37
Consensus pattern (48 bp):
AATTCTATTCATTTCTAGTATTAAAAACCTATCCACATATAATAGAAT
Found at i:7251198 original size:9 final size:9
Alignment explanation
Indices: 7251184--7251214 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7251174 GTTAAACGAA
7251184 TCGAGTTAT
1 TCGAGTTAT
*
7251193 TCGAGTTAA
1 TCGAGTTAT
7251202 TCGAGTTAT
1 TCGAGTTAT
7251211 TCGA
1 TCGA
7251215 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7254530 original size:45 final size:45
Alignment explanation
Indices: 7254466--7254605 Score: 210
Period size: 45 Copynumber: 3.1 Consensus size: 45
7254456 GTAACGGTAG
* *
7254466 CAGTAACAGTAACAGTATTCAACACACAAAATGCTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAA
* *
7254511 CAGTAACGGTAACAGTATTCAACACACAAAGTG-TCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCT-GAATCAGTAA
* *
7254556 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAA
7254601 CAGTA
1 CAGTA
7254606 GTCGACACAT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 85 0.99
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAA
Found at i:7254980 original size:28 final size:31
Alignment explanation
Indices: 7254922--7254980 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
7254912 ATATATAGTT
7254922 TTTATACTATTTATAAAGGTTATAATAATAA
1 TTTATACTATTTATAAAGGTTATAATAATAA
* *
7254953 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATACTATTTATAAAGGTTATAATAATAA
7254981 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTATACTATTTATAAAGGTTATAATAATAA
Found at i:7255975 original size:41 final size:44
Alignment explanation
Indices: 7255873--7255994 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 44
7255863 TATGCGTTCT
7255873 CGTGTAAGACCAC-GTCTGGGACGATGGCATCGATATATGTGATTA
1 CGTGTAAGACC-CTGTCTGGGAC-ATGGCATCGATATATGTGATTA
** * *
7255918 CGTGTAAGACTATGTCTAGGACATTGGCATCG-TAT-T-TGA-TC
1 CGTGTAAGACCCTGTCTGGGACA-TGGCATCGATATATGTGATTA
7255959 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 CGTGTAAGACCCTGTCTGGGACA-TGGCATCGATAT
7255995 GAGATAGCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
41 29 0.44
42 6 0.09
43 1 0.02
44 4 0.06
45 26 0.39
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
CGTGTAAGACCCTGTCTGGGACATGGCATCGATATATGTGATTA
Found at i:7261956 original size:6 final size:6
Alignment explanation
Indices: 7261919--7261970 Score: 61
Period size: 6 Copynumber: 8.3 Consensus size: 6
7261909 CCAAACACAC
*
7261919 CAGTAAA CAGTAA TCAGTAA C-GCTAG CAGTAA CAGTAA CAGTAA CAGTAA
1 CAGT-AA CAGTAA -CAGTAA CAG-TAA CAGTAA CAGTAA CAGTAA CAGTAA
7261969 CA
1 CA
7261971 ATATTCAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 1 0.03
6 28 0.70
7 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:7262003 original size:45 final size:45
Alignment explanation
Indices: 7261951--7262051 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
7261941 CTAGCAGTAA
7261951 CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTG-CTGAAT
1 CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTC-GAAT
* ** * *
7261996 CTGTAACAGTAAGGGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAAT
*
7262041 CACTAACAGTA
1 CAGTAACAGTA
7262052 GTCGACACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAAT
Found at i:7263724 original size:18 final size:19
Alignment explanation
Indices: 7263685--7263725 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
7263675 ATATCAATCA
*
7263685 TCAATTTCAATATTCCAGT
1 TCAATTTCAATATTCCAAT
7263704 TCAA-TTCAATAATT-CAAT
1 TCAATTTCAAT-ATTCCAAT
7263722 TCAA
1 TCAA
7263726 ACCATTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (19 bp):
TCAATTTCAATATTCCAAT
Found at i:7264021 original size:17 final size:16
Alignment explanation
Indices: 7263993--7264039 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
7263983 GATTGACATA
*
7263993 ATTATTTTTTTATTTTT
1 ATTA-TTTTTTATTATT
*
7264010 ATTTTATTTTTATTATT
1 ATTAT-TTTTTATTATT
7264027 ATTATTTTTTATT
1 ATTATTTTTTATT
7264040 CAATTCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTATTTTTTATTATT
Found at i:7264025 original size:20 final size:19
Alignment explanation
Indices: 7263994--7264034 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
7263984 ATTGACATAA
*
7263994 TTATTTTTTTATTTTTATT
1 TTATTTTTTTATTATTATT
7264013 TTATTTTTATTATTATTATT
1 TTATTTTT-TTATTATTATT
7264033 TT
1 TT
7264035 TTATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTATTTTTTTATTATTATT
Found at i:7264090 original size:18 final size:18
Alignment explanation
Indices: 7264046--7264090 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
7264036 TATTCAATTC
7264046 AATT-TAATTCATTTACTT
1 AATTCTAATTCATTTA-TT
7264064 AATTC-AATTCATTT-TT
1 AATTCTAATTCATTTATT
7264080 AATTTCTAATT
1 AA-TTCTAATT
7264091 TGTTCTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.17
17 3 0.12
18 17 0.71
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTCTAATTCATTTATT
Found at i:7265213 original size:25 final size:22
Alignment explanation
Indices: 7265156--7265214 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
7265146 TAATTTATTT
7265156 AATAATAATAATTTTAATATAA
1 AATAATAATAATTTTAATATAA
**
7265178 AACCATAATAATATTTATATATAA
1 AATAATAATAAT-TTTA-ATATAA
*
7265202 TATAATATATAAT
1 AATAATA-ATAAT
7265215 CAAAGAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 10 0.34
23 4 0.14
24 10 0.34
25 5 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATAATAATTTTAATATAA
Found at i:7265816 original size:17 final size:17
Alignment explanation
Indices: 7265780--7265832 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
7265770 TTCAATCAAC
*
7265780 ATTAATAAATAATTTA-A
1 ATTAAT-AATTATTTATA
7265797 ATTAATAATTATTTATA
1 ATTAATAATTATTTATA
* * *
7265814 ATTTATATTTATCTATA
1 ATTAATAATTATTTATA
7265831 AT
1 AT
7265833 GTATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 8 0.26
17 23 0.74
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATAATTATTTATA
Found at i:7266153 original size:5 final size:5
Alignment explanation
Indices: 7266143--7266169 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7266133 AAAATTATTT
7266143 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
7266170 TTTATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:7267714 original size:2 final size:2
Alignment explanation
Indices: 7267707--7267746 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7267697 TGCTAGTGAC
7267707 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7267747 CCGAGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Done.