Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002327.1 Hibiscus syriacus cultivar Beakdansim tig00004751_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 188618
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:337 original size:16 final size:18
Alignment explanation
Indices: 310--344 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
300 AATTCTATAA
310 TTTAATATTGTTT-TTCT
1 TTTAATATTGTTTATTCT
327 TTTAA-ATTGTTTATTCT
1 TTTAATATTGTTTATTCT
344 T
1 T
345 CTCATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTAATATTGTTTATTCT
Found at i:9542 original size:12 final size:12
Alignment explanation
Indices: 9498--9563 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
9488 ATATATATAT
*
9498 ATACCCGACCCG
1 ATACCCGACCCA
*
9510 ATTCCC-AGCCCA
1 ATACCCGA-CCCA
9522 ATA-CCGACCCA
1 ATACCCGACCCA
9533 ATACCCGACCCA
1 ATACCCGACCCA
* *
9545 ATACCTGGCCCA
1 ATACCCGACCCA
9557 ATACCCG
1 ATACCCG
9564 TTTAAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
11 10 0.22
12 35 0.78
ACGTcount: A:0.29, C:0.47, G:0.12, T:0.12
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:12382 original size:31 final size:32
Alignment explanation
Indices: 12310--12382 Score: 85
Period size: 33 Copynumber: 2.3 Consensus size: 32
12300 GCGAAGAAAA
* **
12310 AAATATTAAATTTAGATACTAAATTAATCTAAG
1 AAATTTTAAATTTAGATACTAAA-TAAAATAAG
*
12343 AAATTTTAAATTTAGATACTAAA-AAAATAAT
1 AAATTTTAAATTTAGATACTAAATAAAATAAG
*
12374 TAATTTTAA
1 AAATTTTAA
12383 TTAATATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 13 0.37
33 22 0.63
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (32 bp):
AAATTTTAAATTTAGATACTAAATAAAATAAG
Found at i:13839 original size:22 final size:20
Alignment explanation
Indices: 13793--13832 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13783 CAGTGTTTAA
13793 TTTAAAAATTATATTAAAAT
1 TTTAAAAATTATATTAAAAT
13813 TTTAAAAATTCA-ATTAAAAT
1 TTTAAAAATT-ATATTAAAAT
13833 ATTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAAATTATATTAAAAT
Found at i:17963 original size:6 final size:6
Alignment explanation
Indices: 17952--17986 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
17942 CAAATAAAGG
17952 TATAGA TATAGA TATAGA TATAGA TATAGA TATAG
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATAG
17987 CTGTATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TATAGA
Found at i:20282 original size:2 final size:2
Alignment explanation
Indices: 20269--20302 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
20259 AGAAAAGGTT
*
20269 TG TG TG TT TG TG TG -G 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 T
20303 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:20307 original size:2 final size:2
Alignment explanation
Indices: 20302--20345 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20292 TGTGTGTGTG
20302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20344 TA
1 TA
20346 AACTTCTGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20824 original size:26 final size:25
Alignment explanation
Indices: 20793--20860 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
20783 TATTTTTTTT
*
20793 ATATTTTATATGAATTATT-TAATTTC
1 ATATTTCATATG-ATT-TTATAATTTC
20819 ATATTTCATATGATTTTATAATTTC
1 ATATTTCATATGATTTTATAATTTC
* * *
20844 GTATATC-TATGTTTTTA
1 ATATTTCATATGATTTTA
20861 ATATAATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 11 0.30
25 15 0.41
26 11 0.30
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (25 bp):
ATATTTCATATGATTTTATAATTTC
Found at i:21286 original size:29 final size:29
Alignment explanation
Indices: 21249--21315 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
21239 AAAAAAGGCT
* ** *
21249 AAAAA-ATTATTAGACGTTAAAAATGATC
1 AAAAATATTACTAGACACTAAAAATAATC
*
21277 AAAAATATTACTAGACACTACAAATAATC
1 AAAAATATTACTAGACACTAAAAATAATC
*
21306 GAAAATATTA
1 AAAAATATTA
21316 AAAAATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.27
Consensus pattern (29 bp):
AAAAATATTACTAGACACTAAAAATAATC
Found at i:21967 original size:31 final size:33
Alignment explanation
Indices: 21920--21998 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
21910 TTTAAATTGT
*
21920 TATTATTTTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAATAATATTTATATAAA
*
21952 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAA
*
21986 TATTATTTATTTA
1 TATTATTTTTTTA
21999 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAA
Found at i:22160 original size:17 final size:17
Alignment explanation
Indices: 22138--22191 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
22128 AATGTTAATA
22138 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
22155 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
22172 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
22189 TTT
1 TTT
22192 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:23751 original size:21 final size:21
Alignment explanation
Indices: 23721--23768 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
23711 GCAGGGGTAC
* *
23721 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
23742 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
23763 ATGCCA
1 ATGCCA
23769 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:23798 original size:21 final size:21
Alignment explanation
Indices: 23772--23865 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
23762 TATGCCATCT
* *
23772 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
23793 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
23814 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
23835 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
*
23856 TCGCAGGGTT
1 CCGCAGGGTT
23866 TTATACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 2 0.03
21 64 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:24417 original size:28 final size:28
Alignment explanation
Indices: 24385--24478 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 28
24375 GATAAATGTT
*
24385 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATTATATTATTCAAAA
*
24413 TTTAAAATAAAAATAATATTATTCAAATTTAAA
1 TTTAAAATAAAAATTATATTATTC--A---AAA
* *
24446 TTTAAAATATAAATTATAGTATTCAAAA
1 TTTAAAATAAAAATTATATTATTCAAAA
24474 TTTAA
1 TTTAA
24479 CATTAAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
28 30 0.54
30 1 0.02
31 1 0.02
33 24 0.43
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (28 bp):
TTTAAAATAAAAATTATATTATTCAAAA
Found at i:25036 original size:128 final size:128
Alignment explanation
Indices: 24878--25635 Score: 1250
Period size: 128 Copynumber: 5.9 Consensus size: 128
24868 TTACCTGATT
24878 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
24943 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGTGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
25006 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** * *
25071 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATATG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
25134 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * *
25199 TAACGAAATAATGGAATGCGCCCCCCCCGGGAACGCTCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCG-CGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
25263 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * *
25328 TGATGAAATAATGGAAGGTGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATATG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
25391 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
25456 TGACGAAATAATGGAATGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
25519 TACTGATATATCTAGTATCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
25584 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
25636 ACTCCGATTA
Statistics
Matches: 595, Mismatches: 33, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
128 481 0.81
129 114 0.19
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:25339 original size:257 final size:256
Alignment explanation
Indices: 24878--25634 Score: 1277
Period size: 257 Copynumber: 3.0 Consensus size: 256
24868 TTACCTGATT
24878 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
24943 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACG-TGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAATGCGCCCCCCCGGGAACGCT-CCTTCATGT-GAATAGTGAAATAATAGG
25006 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
129 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* **
25071 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATATG
194 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGAGAAATAATATG
25134 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
25199 TAACGAAATAATGGAATGCGCCCCCCCCGGGAACGCTCCTTCATGTGAATAGTGAAATAATAGGT
66 TGACGAAATAATGGAATGCG-CCCCCCCGGGAACGCTCCTTCATGTGAATAGTGAAATAATAGGT
*
25264 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCT
130 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* * * * *
25329 GATGAAATAATGGAAGGTGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATATG
195 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATATG
25391 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
25456 TGACGAAATAATGGAATGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGACGAAATAATGGAATGCGCCCCCCCGGGAACGCTCCTTCATGTGAATAGTGAAATAATAGGTA
* *
25521 CTGATATATCTAGTATCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
25586 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAG
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAG
25635 TACTCCGATT
Statistics
Matches: 472, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
256 235 0.50
257 236 0.50
258 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (256 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAATGCGCCCCCCCGGGAACGCTCCTTCATGTGAATAGTGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGAGAAATAATATG
Found at i:25592 original size:385 final size:384
Alignment explanation
Indices: 24878--25635 Score: 1250
Period size: 385 Copynumber: 2.0 Consensus size: 384
24868 TTACCTGATT
*
24878 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATC
* **
24943 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGTGCCTTCATGTCCCCTGAGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTA
25008 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
** *
25073 ACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATATGTACT
196 ACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTACT
*
25138 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
261 GATATATCTAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
* * *
25203 GAAATAATGGAATGCGCCCCCCCCGGGAACGCTCCTTCATGTGAATAGTGAAATAATAGG
326 GAAATAATGGAAGGCG-CCCCCCCGGGAACGCGCCTTCATGTAAATAGTGAAATAATAGG
25263 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATC
* * * * * * *
25328 TGATGAAATAATGGAAGGTGCGCCCCTGGGAACGCGCCTTCATGT-GAATAGTGAAATAATATGT
66 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTCCAAT-GAGAAATAATAGGT
25392 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
130 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
* * * *
25457 GACGAAATAATGGAATGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTA
195 GACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAAT-GAGAAATAATAGGTA
* *
25521 CTGATATATCTAGTATCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
259 CTGATATATCTAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTA
*
25586 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGT
324 ACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTAAATAGT
25636 ACTCCGATTA
Statistics
Matches: 346, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
384 31 0.09
385 315 0.91
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (384 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATC
TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTACT
GATATATCTAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTAAC
GAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTAAATAGTGAAATAATAGG
Found at i:25719 original size:8 final size:8
Alignment explanation
Indices: 25706--25746 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
25696 TCACAATCTT
25706 TCAAATTC
1 TCAAATTC
25714 TCAAATTC
1 TCAAATTC
* *
25722 CCAAACTC
1 TCAAATTC
25730 T-AAATTC
1 TCAAATTC
25737 TCAAATTC
1 TCAAATTC
25745 TC
1 TC
25747 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:33666 original size:21 final size:21
Alignment explanation
Indices: 33640--33721 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
33630 CAGAACCCCA
* *
33640 GGGGGGTATCGATTCCCTTGT
1 GGGGGGAATCGATTCCCTTAT
* *
33661 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATT-CCCTT-AT
* * *
33684 AGGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTTAT
33705 GGGGGG-ATCGATTCCCT
1 GGGGGGAATCGATTCCCT
33722 CTGCACCAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.20
21 18 0.36
22 9 0.18
23 13 0.26
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.26
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTTAT
Found at i:46834 original size:21 final size:21
Alignment explanation
Indices: 46808--46863 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
46798 GACCTGAAAT
*
46808 AATAAAAATATTATTTTATTC
1 AATAAAAATATTATTTAATTC
* *
46829 AATAAAAATAGTCATTTAATTG
1 AATAAAAATA-TTATTTAATTC
46851 AA-AAAAATATTAT
1 AATAAAAATATTAT
46864 ATACAAGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 17 0.57
22 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (21 bp):
AATAAAAATATTATTTAATTC
Found at i:49165 original size:26 final size:23
Alignment explanation
Indices: 49135--49184 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
49125 TATTCTAAGA
*
49135 TGTATTTTATTATATTTGTAATATTT
1 TGTATTTAATT-TA-TT-TAATATTT
49161 TGTATTTAATTTATTTAATATTT
1 TGTATTTAATTTATTTAATATTT
49184 T
1 T
49185 ACTTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
24 2 0.09
25 2 0.09
26 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
TGTATTTAATTTATTTAATATTT
Found at i:64191 original size:25 final size:26
Alignment explanation
Indices: 64138--64191 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
64128 ATTAGGGGTG
* *
64138 AATTTATAAAATTTTAAGTAGATGAA
1 AATTTATAAAATTTTAAGAAGATAAA
64164 AATTTATAAAATTTT-AGAAGATAAA
1 AATTTATAAAATTTTAAGAAGATAAA
64189 AAT
1 AAT
64192 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (26 bp):
AATTTATAAAATTTTAAGAAGATAAA
Found at i:77584 original size:15 final size:17
Alignment explanation
Indices: 77564--77606 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
77554 GATTAAATAA
*
77564 GAATGATTAAAT-G-TT
1 GAATGATTAAATGGACT
*
77579 GAATGATTCAATGGACT
1 GAATGATTAAATGGACT
77596 GAATGATTAAA
1 GAATGATTAAA
77607 AGTTTCTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 11 0.48
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (17 bp):
GAATGATTAAATGGACT
Found at i:81625 original size:59 final size:59
Alignment explanation
Indices: 81503--81629 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 59
81493 GAATGAATAT
*
81503 CATAGTTTGGGGATGAAATTAGAATGTTAAAAAGTTTAAGGACTATTTAGAATCAGAGT
1 CATAGTTTGGGGATGAAATTAGAATGTTAAAAAGTTTAAGGACTATTTAGAATCAGAGA
* * * * *
81562 CATAGTTTGGGTATGAAGTT-GAAATGTTTAAAAGTTTAAGGA-TCATTTTGAAT-TGAGGA
1 CATAGTTTGGGGATGAAATTAG-AATGTTAAAAAGTTTAAGGACT-ATTTAGAATCAGA-GA
81621 CATAGTTTG
1 CATAGTTTG
81630 AGGACATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
58 4 0.07
59 55 0.93
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (59 bp):
CATAGTTTGGGGATGAAATTAGAATGTTAAAAAGTTTAAGGACTATTTAGAATCAGAGA
Found at i:82536 original size:37 final size:36
Alignment explanation
Indices: 82465--82538 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
82455 GTTGGAAAAT
* *
82465 ATTTATATATTTTTTTTAAAAAATTAAATTTATAAA
1 ATTTATATAATTTTTTTAAAAAATTAAATATATAAA
*
82501 ATTTATATAAATTTTTTTACAAAATTGAAA-ATATAAA
1 ATTTATAT-AATTTTTTTAAAAAATT-AAATATATAAA
82538 A
1 A
82539 AGGTTTAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 22 0.67
38 3 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATAATTTTTTTAAAAAATTAAATATATAAA
Found at i:83264 original size:18 final size:17
Alignment explanation
Indices: 83232--83265 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
83222 ACAAATTTAA
83232 ATAATATATTCATATTC
1 ATAATATATTCATATTC
*
83249 ATAATATTTATCATATT
1 ATAATATAT-TCATATT
83266 TAAGGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATATATTCATATTC
Found at i:83390 original size:24 final size:23
Alignment explanation
Indices: 83362--83435 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 23
83352 TATTTTTATT
83362 AATTTTTTAATAATAAATAATTAA
1 AATTTTTTAA-AATAAATAATTAA
* *
83386 AATTTAATCAAAATATAAT-ATTAA
1 AATTT-TTTAAAATA-AATAATTAA
*
83410 ATATATTTTTAAAAATAATTAATTAA
1 A-AT-TTTTT-AAAATAAATAATTAA
83436 GTGACTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
24 15 0.38
25 11 0.28
26 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTTTAAAATAAATAATTAA
Found at i:83766 original size:21 final size:21
Alignment explanation
Indices: 83727--83786 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
83717 ATTTTATTAT
*
83727 TATTAGATATTTT-ACTAAAAA
1 TATTA-ATATTTTAAATAAAAA
83748 TATTAATATTTTAAATAAAAA
1 TATTAATATTTTAAATAAAAA
* *
83769 TAATAATTTTTTAAATAA
1 TATTAATATTTTAAATAA
83787 TTTTTTATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 7 0.20
21 28 0.80
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TATTAATATTTTAAATAAAAA
Found at i:90309 original size:13 final size:13
Alignment explanation
Indices: 90291--90316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90281 ATAGTTGAAA
90291 CAGTCTTCATATG
1 CAGTCTTCATATG
90304 CAGTCTTCATATG
1 CAGTCTTCATATG
90317 TGCGTCTGTA
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:92437 original size:16 final size:17
Alignment explanation
Indices: 92416--92449 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92406 AAAAAAAAAA
*
92416 ATGACAAACATT-TTTT
1 ATGACAAAAATTATTTT
92432 ATGACAAAAATTATTTT
1 ATGACAAAAATTATTTT
92449 A
1 A
92450 ATATAGTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
ATGACAAAAATTATTTT
Found at i:93308 original size:13 final size:13
Alignment explanation
Indices: 93290--93315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93280 CGTACTCCAC
93290 CGCCGGCCACCGT
1 CGCCGGCCACCGT
93303 CGCCGGCCACCGT
1 CGCCGGCCACCGT
93316 AAACGGTGGC
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:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:94029 original size:11 final size:11
Alignment explanation
Indices: 94026--94070 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
94016 TAATTATTTA
94026 ATAATAAT-AT
1 ATAATAATAAT
94036 AATAATAATAAT
1 -ATAATAATAAT
94048 ATAATAATAAT
1 ATAATAATAAT
*
94059 ATTTATAATAAT
1 A-TAATAATAAT
94071 TTTAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:94030 original size:3 final size:3
Alignment explanation
Indices: 94024--94070 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
94014 AATAATTATT
* *
94024 TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA TAA TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94070 T
1 T
94071 TTTAATTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:94097 original size:21 final size:22
Alignment explanation
Indices: 94043--94099 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
94033 TATAATAATA
**
94043 ATAAT-ATAATAATAAT-ATTT
1 ATAATAATAATAATTTTAATTT
**
94063 ATAATAATTTTAATTTTAATTT
1 ATAATAATAATAATTTTAATTT
94085 -TAATAATAATAATTT
1 ATAATAATAATAATTT
94100 AAGTAAAATG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 20 0.69
22 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAATAATAATAATTTTAATTT
Found at i:94377 original size:76 final size:76
Alignment explanation
Indices: 94251--95040 Score: 1481
Period size: 76 Copynumber: 10.4 Consensus size: 76
94241 GAGGTCTTAA
* *
94251 AAACATCATGCACTGCAGGATTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94316 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
94327 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTACCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94392 AGGCTTTTTGG
66 AGGCTTTTTGG
94403 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94468 AGGCTTTTTGG
66 AGGCTTTTTGG
*
94479 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94544 AGGCTTTTTGG
66 AGGCTTTTTGG
*
94555 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94620 AGGCTTTTTGG
66 AGGCTTTTTGG
*
94631 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94696 AGGCTTTTTGG
66 AGGCTTTTTGG
*
94707 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94772 AGGCTTTTTGG
66 AGGCTTTTTGG
94783 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94848 AGGCTTTTTGG
66 AGGCTTTTTGG
*
94859 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
94924 AGGCTTTTTGG
66 AGGCTTTTTGG
*
94935 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
95000 AGGCTTTTTGG
66 AGGCTTTTTGG
*
95011 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
95041 TGAGAAATAG
Statistics
Matches: 697, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 697 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:95726 original size:22 final size:22
Alignment explanation
Indices: 95701--95755 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
95691 CATAAAGCTT
*
95701 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
95723 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
95745 TCATCTTTGAA
1 TCATCTTTGAA
95756 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:97297 original size:75 final size:75
Alignment explanation
Indices: 97194--97358 Score: 303
Period size: 75 Copynumber: 2.2 Consensus size: 75
97184 GGTTTTCAGC
*
97194 ATGCCCTAATATTTGCTTCTTGTTAATATGAGTCTTCAAAATACACCACATGGATCTGTCTGAAG
1 ATGCCCCAATA-TTGCTTCTTGTTAATATGAGTCTTCAAAATACACCACATGGATCTGTCTGAAG
*
97259 TGAGCTCTAAA
65 TGAGCTATAAA
97270 ATGCCCCAATATTGCTTCTTGTTAATATGAGTCTTCAAAATACACCACATGGATCTGTCTGAAGT
1 ATGCCCCAATATTGCTTCTTGTTAATATGAGTCTTCAAAATACACCACATGGATCTGTCTGAAGT
97335 GAGCTATAAA
66 GAGCTATAAA
97345 ATGCCCCAATATTG
1 ATGCCCCAATATTG
97359 GCTGATACAG
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
75 77 0.89
76 10 0.11
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (75 bp):
ATGCCCCAATATTGCTTCTTGTTAATATGAGTCTTCAAAATACACCACATGGATCTGTCTGAAGT
GAGCTATAAA
Found at i:97346 original size:36 final size:35
Alignment explanation
Indices: 97222--97346 Score: 92
Period size: 36 Copynumber: 3.3 Consensus size: 35
97212 CTTGTTAATA
97222 TGAGTCTTCAAAATACACCACATGGATCTGTCTGAAG
1 TGAG-CTT-AAAATACACCACATGGATCTGTCTGAAG
* * * ** *
97259 TGAGCTCTAAAATGCCCCAATATTGCTTCTTGT-T-AATA
1 TGAGCT-TAAAATACACC-ACA-TGGATC-TGTCTGAA-G
97297 TGAGTCTTCAAAATACACCACATGGATCTGTCTGAAG
1 TGAG-CTT-AAAATACACCACATGGATCTGTCTGAAG
97334 TGAGCTATAAAAT
1 TGAGCT-TAAAAT
97347 GCCCCAATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
36 20 0.30
37 19 0.29
38 14 0.21
39 13 0.20
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (35 bp):
TGAGCTTAAAATACACCACATGGATCTGTCTGAAG
Found at i:98519 original size:83 final size:83
Alignment explanation
Indices: 98380--98725 Score: 656
Period size: 83 Copynumber: 4.2 Consensus size: 83
98370 TTTATTTCTC
*
98380 CTATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
98445 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
98463 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
98528 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
98546 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
98611 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
98629 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
98694 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
98712 CTATTGAGCACATT
1 CTA-TGAGCACATT
98726 ACATTTGTTC
Statistics
Matches: 260, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
83 250 0.96
84 10 0.04
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:105661 original size:30 final size:27
Alignment explanation
Indices: 105628--105681 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
105618 ATATAAATAA
* *
105628 TATATATAAATACTATAAAAATAATATG
1 TATATAAAAAAACTATAAAAA-AATATG
*
105656 TATATAAAAAAATTATAAAAAAATAT
1 TATATAAAAAAACTATAAAAAAATAT
105682 AAATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
TATATAAAAAAACTATAAAAAAATATG
Found at i:105693 original size:9 final size:10
Alignment explanation
Indices: 105607--105695 Score: 53
Period size: 10 Copynumber: 9.0 Consensus size: 10
105597 AAATACTTGT
105607 AATA-AAATGA
1 AATATAAAT-A
105617 AATATAAAT-
1 AATATAAATA
*
105626 AATATATATA
1 AATATAAATA
105636 AATACTATAA-A
1 AATA-TA-AATA
* *
105647 AATA-ATATG
1 AATATAAATA
* *
105656 TATATAAAAA
1 AATATAAATA
*
105666 AATTATAAAAA
1 AA-TATAAATA
105677 AATATAAATA
1 AATATAAATA
105687 AAT-TAAATA
1 AATATAAATA
105696 TATGAATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
8 1 0.02
9 18 0.29
10 21 0.34
11 21 0.34
12 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (10 bp):
AATATAAATA
Found at i:107125 original size:13 final size:13
Alignment explanation
Indices: 107107--107132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107097 CGTACTCCAC
107107 CGCCGGCCACCGT
1 CGCCGGCCACCGT
107120 CGCCGGCCACCGT
1 CGCCGGCCACCGT
107133 AAACGGTGGC
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:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:107851 original size:3 final size:3
Alignment explanation
Indices: 107845--107897 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
107835 AATAATTATT
* *
107845 TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAT TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
107891 TAA TAA T
1 TAA TAA T
107898 TTTAATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:107875 original size:23 final size:23
Alignment explanation
Indices: 107845--107897 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
107835 AATAATTATT
107845 TAATAATATAATAATAATAATAA
1 TAATAATATAATAATAATAATAA
* *
107868 TAATAATATAATAATAATATTTA
1 TAATAATATAATAATAATAATAA
107891 TAATAAT
1 TAATAAT
107898 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAATATAATAATAATAATAA
Found at i:107893 original size:20 final size:20
Alignment explanation
Indices: 107834--107895 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 20
107824 TTTGGGTTTG
107834 TAATAATTATTTAATAATATAA
1 TAATAA-TATTT-ATAATATAA
*
107856 TAATAATAATAATAATAATATAA
1 TAATAAT-AT--TTATAATATAA
107879 TAATAATATTTATAATA
1 TAATAATATTTATAATA
107896 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 7 0.20
21 1 0.03
22 10 0.29
23 16 0.46
24 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAATATTTATAATATAA
Found at i:107921 original size:12 final size:12
Alignment explanation
Indices: 107853--107921 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
107843 TTTAATAATA
**
107853 TAATAATAATAA
1 TAATAATAATTT
*
107865 TAATAATAA-TA
1 TAATAATAATTT
107876 TAATAATAATATT
1 TAATAATAAT-TT
107889 T-ATAATAATTT
1 TAATAATAATTT
**
107900 TAATTTTAATTT
1 TAATAATAATTT
107912 TAATAATAAT
1 TAATAATAAT
107922 AATTTAAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
11 13 0.27
12 33 0.69
13 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:108552 original size:3 final size:3
Alignment explanation
Indices: 108546--108570 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
108536 ATTGATTATT
108546 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
108571 AATTAAAAGA
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:109162 original size:21 final size:21
Alignment explanation
Indices: 109119--109186 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
109109 TTTTCCCAAT
** *
109119 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
109139 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
109160 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
109181 TTGCAA
1 TCGCAA
109187 CGCGGTACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 12 0.28
21 31 0.72
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:109222 original size:41 final size:41
Alignment explanation
Indices: 109177--109314 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 41
109167 GCGAATTTGG
* *
109177 AAAATTGCAACGCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * * *
109218 AAAATCGCAACGCGATACTGACTTTCGTAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
** * * * *
109258 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
109299 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
109315 TTTCAAAGCG
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
40 31 0.42
41 43 0.58
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:109255 original size:20 final size:20
Alignment explanation
Indices: 109222--109288 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
109212 TAATACAAAA
*
109222 TCGCAACGCGATACTGACTT
1 TCGCAACTCGATACTGACTT
* * *
109242 TCGTAACTCGATACTTAATT
1 TCGCAACTCGATACTGACTT
*
109262 TCGCAACTCAATACTGACTT
1 TCGCAACTCGATACTGACTT
109282 TCGCAAC
1 TCGCAAC
109289 GAGATAATAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (20 bp):
TCGCAACTCGATACTGACTT
Found at i:109509 original size:22 final size:22
Alignment explanation
Indices: 109481--109524 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
109471 CACTCTCTCA
109481 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
109503 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
109525 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:109826 original size:20 final size:20
Alignment explanation
Indices: 109787--109845 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
109777 TTTATTCTCT
* **
109787 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
109807 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* ** *
109827 TGTTATGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
109846 AGAAACTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:110036 original size:25 final size:24
Alignment explanation
Indices: 109982--110036 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
109972 TGTTTATTAT
* *
109982 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
110006 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
110032 TGTTT
1 TGTTT
110037 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:111185 original size:18 final size:18
Alignment explanation
Indices: 111164--111211 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
111154 TCCACTTCGG
111164 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
111182 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
111200 GAGCCATCACCT
1 GAGCCATCACCT
111212 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:111815 original size:19 final size:19
Alignment explanation
Indices: 111746--111817 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
111736 TAGTTTACTT
*
111746 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
111766 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
111786 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
111805 TCGCAACGCGAAA
1 TCGCAACGCGAAA
111818 CACAAATCGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 19 0.43
20 24 0.55
21 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:111846 original size:19 final size:19
Alignment explanation
Indices: 111824--111887 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
111814 GAAACACAAA
111824 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
111843 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
111859 TCG--TTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
111876 TCGCATTGCGAT
1 TCGCATTGCGAT
111888 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 5 0.14
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 16 0.46
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:111906 original size:20 final size:20
Alignment explanation
Indices: 111872--111926 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
111862 TTACGATTTT
*
111872 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
111891 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
111911 CATTTCCGCGTTGCGA
1 CATTTCCGCGTTGCGA
111927 AAGTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:113784 original size:14 final size:14
Alignment explanation
Indices: 113750--113788 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
113740 TTGATTGTTT
113750 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
113764 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
113778 TGTTGATTTGT
1 AATTGATTTGT
113789 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:113934 original size:14 final size:14
Alignment explanation
Indices: 113915--113968 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
113905 GAAACTGACT
113915 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
113929 ATCGCAATGTGAAATGAAA
1 ATCGCAA--CG--A-GAAA
113948 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
113962 ATCGCAA
1 ATCGCAA
113969 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 18 0.55
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.33
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:113961 original size:19 final size:19
Alignment explanation
Indices: 113925--113961 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
113915 ATCGCAACGA
* *
113925 GAAAATCGCAATGTGAAAT
1 GAAAATCGCAACGAGAAAT
113944 GAAAATCGCAACGAGAAA
1 GAAAATCGCAACGAGAAA
113962 ATCGCAATGC
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:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:114017 original size:20 final size:20
Alignment explanation
Indices: 113992--114087 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
113982 TCGCATTGCG
*
113992 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
114012 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
114033 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
114052 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
114072 ATTTTC-ACGTTGCGAT
1 ATTTTCGA-GTTGCGAT
114088 TTCCCCGTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.05
20 54 0.90
21 3 0.05
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:114025 original size:34 final size:36
Alignment explanation
Indices: 113980--114067 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
113970 GCGATTTTCA
* *
113980 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
114014 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
114054 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
114068 AGCCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 12 0.26
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.59
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:114085 original size:40 final size:41
Alignment explanation
Indices: 113992--114087 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
113982 TCGCATTGCG
* ***
113992 ATTTTCTAGTTGCGATAGCCATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGATAGCCATTTTCGCGTTGCGATTAGCC
*
114033 A-TTTCGAATTGCGATAGCCATTTTCGCGTTGCGA-TAGCC
1 ATTTTCGAGTTGCGATAGCCATTTTCGCGTTGCGATTAGCC
114072 ATTTTC-ACGTTGCGAT
1 ATTTTCGA-GTTGCGAT
114088 TTCCCCGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
39 4 0.09
40 42 0.89
41 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (41 bp):
ATTTTCGAGTTGCGATAGCCATTTTCGCGTTGCGATTAGCC
Found at i:114326 original size:20 final size:20
Alignment explanation
Indices: 114301--114350 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
114291 TTGAAGATGA
114301 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
114321 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
114341 TTGCGATTTT
1 TTGCGATTTT
114351 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:115208 original size:24 final size:24
Alignment explanation
Indices: 115181--115234 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
115171 GTATTCGAAA
*
115181 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
115205 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
115229 TTTGAT
1 TTTGAT
115235 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:115426 original size:12 final size:12
Alignment explanation
Indices: 115409--115433 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115399 ATATAATCCT
115409 GAAGAAGAAAAA
1 GAAGAAGAAAAA
115421 GAAGAAGAAAAA
1 GAAGAAGAAAAA
115433 G
1 G
115434 TCACCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:117962 original size:20 final size:20
Alignment explanation
Indices: 117939--118032 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
117929 TGATAGTAAG
117939 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
117959 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
117979 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
118000 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
118020 ATTCGCATTGCGA
1 ATTCGCATTGCGA
118033 ATTATGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 46 0.72
21 18 0.28
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:118045 original size:41 final size:41
Alignment explanation
Indices: 117913--118170 Score: 136
Period size: 41 Copynumber: 6.3 Consensus size: 41
117903 CGAATGGCGC
* * * * *
117913 TATGTAAATCGCATTGTGATAGTAAG-ATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-TTACGTATTCGCATTGCGAAT
* * * * * *
117954 TACG-TATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* *
117995 TACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
** * * *
118035 TATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* * *
118076 TAGGAAAATTGCATTGCGATAGT-CAGTA-TCGCATTGCG-AT
1 TATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAAT
* * ** * *
118116 TTTCCAATTTCGCATTTCGATTTACTTATTCGCATTGCGAAT
1 TAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
**
118158 TGGGAAAATCGCA
1 TATGAAAATCGCA
118171 ACGCGAAATT
Statistics
Matches: 163, Mismatches: 41, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
39 2 0.01
40 39 0.24
41 114 0.70
42 5 0.03
43 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
Found at i:118053 original size:21 final size:21
Alignment explanation
Indices: 118029--118084 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
118019 TATTCGCATT
*
118029 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
118050 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
118070 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
118085 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:118065 original size:61 final size:61
Alignment explanation
Indices: 117941--118073 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 61
117931 ATAGTAAGAT
* * * ** * *
117941 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
* *
118002 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAATCGCAACGCGATATAC-TAAA
*
118063 TCGCAATGCGA
1 TCGCATTGCGA
118074 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 3 0.05
61 52 0.88
62 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAA
Found at i:118093 original size:21 final size:21
Alignment explanation
Indices: 118022--118094 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
118012 ATTTACGTAT
* *
118022 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
118043 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
118063 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
118084 TTGCATTGCGA
1 TCGCAATGCGA
118095 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:118130 original size:21 final size:20
Alignment explanation
Indices: 118104--118155 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
118094 ATAGTCAGTA
*
118104 TCGCATTGCGATTTTCCAATT
1 TCGCATTGCGATTTACCAA-T
* **
118125 TCGCATTTCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
118145 TCGCATTGCGA
1 TCGCATTGCGA
118156 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:118197 original size:21 final size:22
Alignment explanation
Indices: 118145--118197 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
118135 ATTTACTTAT
118145 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
118166 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
*
118187 TCGTATTGCGA
1 TCGCATTGCGA
118198 TAGTTATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:124500 original size:149 final size:149
Alignment explanation
Indices: 124226--124518 Score: 514
Period size: 149 Copynumber: 2.0 Consensus size: 149
124216 CAATGAAATC
* * *
124226 GAAAGTGTTGGCAGTGCTTATCAAATGTGAAGCTTTGTTACTTTTATTTGACATCGAAGCGCCCC
1 GAAAGTGTTGGCAATGCTTATCAAATGTGAAGCTTTGTTACTTTTATTTGACACCGAAGCACCCC
*
124291 ACTTCAGTTACTTTGACAAATAGAATCCAGAAAGCTTTGTTACTTTAGGTAGAGACGGATGAAAG
66 ACTTCAGTTACTTTGACAAATAGAATCCAGAAAGCTTTGTTACTTTAGGAAGAGACGGATGAAAG
124356 AAGGTTTTCCTCCTATCCA
131 AAGGTTTTCCTCCTATCCA
*
124375 GAAAGTGTTGGCAATGCTTATCAAATGTGAAGTTTTGTTACTTTTATTTGACACCGAAGCACCCC
1 GAAAGTGTTGGCAATGCTTATCAAATGTGAAGCTTTGTTACTTTTATTTGACACCGAAGCACCCC
* *
124440 AGTTCAGTTACTTTGACAAATAGAATCCAGAAAGCTTTGTTACTTTAGGAAGAGATGGATGAAAG
66 ACTTCAGTTACTTTGACAAATAGAATCCAGAAAGCTTTGTTACTTTAGGAAGAGACGGATGAAAG
*
124505 AGGGTTTTCCTCCT
131 AAGGTTTTCCTCCT
124519 CCTGGCCCGT
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 136 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (149 bp):
GAAAGTGTTGGCAATGCTTATCAAATGTGAAGCTTTGTTACTTTTATTTGACACCGAAGCACCCC
ACTTCAGTTACTTTGACAAATAGAATCCAGAAAGCTTTGTTACTTTAGGAAGAGACGGATGAAAG
AAGGTTTTCCTCCTATCCA
Found at i:126119 original size:3 final size:3
Alignment explanation
Indices: 126104--126171 Score: 64
Period size: 3 Copynumber: 21.7 Consensus size: 3
126094 CTTCATTATA
* *
126104 ATC ATC CTC ATC ATC ATCC ATC AAGTC ATC ATC ATC ATC ATC GTC ATC
1 ATC ATC ATC ATC ATC AT-C ATC -A-TC ATC ATC ATC ATC ATC ATC ATC
** *
126152 ATC GCC ATC ATC ATT ATC AT
1 ATC ATC ATC ATC ATC ATC AT
126172 TCACACCTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
3 45 0.87
4 5 0.10
5 2 0.04
ACGTcount: A:0.29, C:0.34, G:0.04, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:132775 original size:20 final size:21
Alignment explanation
Indices: 132750--132842 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
132740 TTTTCCCAAT
*
132750 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
132770 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
132791 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
132811 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
132832 TCGCAATGCGA
1 TCGCAATGCGA
132843 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:132807 original size:41 final size:41
Alignment explanation
Indices: 132750--132842 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
132740 TTTTCCCAAT
132750 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
132791 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
132832 TCGCAATGCGA
1 TCGCAATGCGA
132843 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:132855 original size:41 final size:41
Alignment explanation
Indices: 132769--132903 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
132759 GAATAAGTAA
* *
132769 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
132810 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
132851 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
132892 TTCGCAACGCGA
1 ATCGCAACGCGA
132904 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:132856 original size:20 final size:19
Alignment explanation
Indices: 132831--132945 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 19
132821 AATTGGGAAA
*
132831 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACT-ACT
* * *
132851 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTAC--T
*
132872 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAC-TACT
*
132892 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACT-ACT
* *
132912 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATACTAC-T
*
132932 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
132946 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.06
20 47 0.60
21 23 0.29
22 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (19 bp):
ATCGCAACGCGATACTACT
Found at i:133141 original size:22 final size:22
Alignment explanation
Indices: 133113--133156 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
133103 CACTCTCTCA
133113 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
133135 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
133157 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:133459 original size:20 final size:20
Alignment explanation
Indices: 133400--133463 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
133390 GCGATTTTAG
*
133400 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
133420 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
133440 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
133460 TTTC
1 TTTC
133464 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:134809 original size:18 final size:18
Alignment explanation
Indices: 134783--134827 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
134773 TCCACTTCGG
*
134783 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
134801 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
134819 GAGCCATCA
1 GAGCCATCA
134828 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:135370 original size:19 final size:19
Alignment explanation
Indices: 135309--135375 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
135299 TAGTTTACTT
*
135309 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
135329 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
**
135349 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
135368 TCGCAACG
1 TCGCAACG
135376 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.37
20 25 0.61
21 1 0.02
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:135383 original size:14 final size:14
Alignment explanation
Indices: 135364--135641 Score: 556
Period size: 14 Copynumber: 19.9 Consensus size: 14
135354 ACGCGAAATG
135364 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135378 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135392 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135406 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135420 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135434 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135448 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135462 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135476 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135490 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135504 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135518 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135532 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135546 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135560 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135574 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135588 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135602 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135616 AAAATCGCAACGAC
1 AAAATCGCAACGAC
135630 AAAATCGCAACG
1 AAAATCGCAACG
135642 CGATTTGTGT
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 264 1.00
ACGTcount: A:0.50, C:0.28, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:135663 original size:19 final size:18
Alignment explanation
Indices: 135651--135757 Score: 78
Period size: 20 Copynumber: 5.9 Consensus size: 18
135641 GCGATTTGTG
*
135651 TTTCGCGTTGCGATTTCA
1 TTTCGCATTGCGATTTCA
135669 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
135685 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
**
135702 TTTCGCATTGCGATAACCA
1 TTTCGCATTGCGAT-TTCA
* *
135721 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCATTGCGAT-TTCA
*
135741 TTTTCGCGTTGCGATTT
1 -TTTCGCATTGCGATTT
135758 TAAGTTTCGT
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 4 0.06
17 4 0.06
18 16 0.22
19 12 0.17
20 24 0.33
21 3 0.04
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (18 bp):
TTTCGCATTGCGATTTCA
Found at i:135735 original size:39 final size:33
Alignment explanation
Indices: 135651--135715 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
135641 GCGATTTGTG
135651 TTTCGCGTTGCGA-TTTCATTTCGCATTGCGAT
1 TTTCGCGTTGCGATTTTCATTTCGCATTGCGAT
135683 TTT-GTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TTTCG-CGTTGCGATTTTCATTTCGCATTGCGAT
135716 AACCATTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 1 0.03
32 11 0.35
33 19 0.61
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTCATTTCGCATTGCGAT
Found at i:137644 original size:14 final size:14
Alignment explanation
Indices: 137625--137660 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
137615 ATTGTTTAAT
137625 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
137639 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
137653 TGATTTGT
1 TGATTTGT
137661 TTAATTGATG
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:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:137786 original size:14 final size:17
Alignment explanation
Indices: 137777--137839 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 17
137767 ATCGCAACGA
137777 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
137796 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAA-GCG-AAT
137815 GAAAATCGCAA-CG-A-
1 GAAAATCGCAAGCGAAT
137829 GAAAATCGCAA
1 GAAAATCGCAA
137840 TGTGATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
17 2 0.05
19 30 0.68
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (17 bp):
GAAAATCGCAAGCGAAT
Found at i:137832 original size:19 final size:19
Alignment explanation
Indices: 137777--137825 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
137767 ATCGCAACGA
137777 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
137796 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
137815 GAAAATCGCAA
1 GAAAATCGCAA
137826 CGAGAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:137888 original size:20 final size:20
Alignment explanation
Indices: 137863--137920 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
137853 TCGCATTGCG
* *
137863 ATTTTCTCGTTGCGATAGCT
1 ATTTTCGCGTTGCGATAGCC
137883 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
137903 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
137921 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:139028 original size:24 final size:24
Alignment explanation
Indices: 138977--139030 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
138967 GTATTCGAAA
* * *
138977 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACAGAC
*
139001 TTTGATATTGGTCAATACACAGAT
1 TTTGATATTGGTCAATACACAGAC
139025 TTTGAT
1 TTTGAT
139031 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACAGAC
Found at i:139222 original size:12 final size:12
Alignment explanation
Indices: 139205--139229 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
139195 ATATAATCCT
139205 GAAGAAGAAAAA
1 GAAGAAGAAAAA
139217 GAAGAAGAAAAA
1 GAAGAAGAAAAA
139229 G
1 G
139230 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:141545 original size:19 final size:19
Alignment explanation
Indices: 141523--141653 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
141513 GGAAATTACT
141523 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
141542 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
141556 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
141575 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
141589 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
141608 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
141622 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
141641 ATCGCAACGCGAA
1 ATCGCAATGCGAA
141654 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:141565 original size:33 final size:33
Alignment explanation
Indices: 141523--141649 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
141513 GGAAATTACT
141523 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
141556 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
141588 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
141622 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
141650 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:141630 original size:66 final size:66
Alignment explanation
Indices: 141524--141656 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
141514 GAAATTACTA
*
141524 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
141589 T
66 T
*
141590 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
141655 T
66 T
141656 T
1 T
141657 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:141837 original size:14 final size:14
Alignment explanation
Indices: 141814--141847 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
141804 TCAATTAAAC
141814 AATCAACTTTTACA
1 AATCAACTTTTACA
*
141828 AATCACCTTTTACA
1 AATCAACTTTTACA
141842 AATCAA
1 AATCAA
141848 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:143288 original size:42 final size:42
Alignment explanation
Indices: 143242--143321 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
143232 CGATGACATT
* * *
143242 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
143284 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
143322 CAAGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:145350 original size:20 final size:19
Alignment explanation
Indices: 145319--145459 Score: 95
Period size: 19 Copynumber: 7.8 Consensus size: 19
145309 TCTTTTGGTT
145319 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
145338 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
145359 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
145378 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
145392 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
145411 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
145425 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
145444 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
145460 TGCGATTTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
14 19 0.20
16 4 0.04
17 3 0.03
19 38 0.40
20 29 0.31
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:145438 original size:33 final size:33
Alignment explanation
Indices: 145344--145429 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
145334 ACGAGATAAT
145344 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
145378 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
145411 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
145430 AAAAATCGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:145482 original size:19 final size:19
Alignment explanation
Indices: 145460--145504 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
145450 AAAATCGCAA
*
145460 TGCGATTTTTGTTTTGCGT
1 TGCGATTTTTATTTTGCGT
*
145479 TGCGTTTTTTATTTTGCGT
1 TGCGATTTTTATTTTGCGT
145498 TGCGATT
1 TGCGATT
145505 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.11, G:0.24, T:0.58
Consensus pattern (19 bp):
TGCGATTTTTATTTTGCGT
Found at i:146078 original size:20 final size:20
Alignment explanation
Indices: 146053--146105 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
146043 TCGCTATGTA
146053 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
146073 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
146093 TATCTCGTTGCGA
1 AATCGCGTTGCGA
146106 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:146258 original size:21 final size:21
Alignment explanation
Indices: 146218--146258 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
146208 ACTGTAGACC
** *
146218 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATACAACT
146239 ATCGCAACGCGAAATACAAC
1 ATCGCAACGCGAAATACAAC
146259 GCAAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATACAACT
Found at i:174416 original size:2 final size:2
Alignment explanation
Indices: 174376--174405 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
174366 ATCAATAAAA
*
174376 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
174406 TTAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:177921 original size:2 final size:2
Alignment explanation
Indices: 177914--177943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
177904 GATATTTTTA
177914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
177944 TATGAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178729 original size:2 final size:2
Alignment explanation
Indices: 178724--178754 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
178714 TATATTATAT
178724 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
178755 TCCTGGGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:184669 original size:25 final size:25
Alignment explanation
Indices: 184615--184662 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
184605 CTACTCGTTA
**
184615 AATATCTAAATTATTTTTTTATTTT
1 AATATCTAAATTATTTTTTTAAATT
*
184640 AATATCTAAATTTTTTTTTTAAA
1 AATATCTAAATTATTTTTTTAAA
184663 ATTATATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
AATATCTAAATTATTTTTTTAAATT
Found at i:186825 original size:14 final size:15
Alignment explanation
Indices: 186799--186827 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
186789 ATATTATATC
186799 AAATTATTTGAAAAA
1 AAATTATTTGAAAAA
186814 AAATTA-TTGAAAAA
1 AAATTATTTGAAAAA
186828 CATAAAAAAT
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:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
AAATTATTTGAAAAA
Found at i:188236 original size:24 final size:24
Alignment explanation
Indices: 188192--188241 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
188182 ATAAAGAACC
*
188192 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
188216 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
188240 AA
1 AA
188242 CCAACTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Done.