Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008282.1 Hibiscus syriacus cultivar Beakdansim tig00110944_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: 1335609
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:568047 original size:24 final size:23
Alignment explanation
Indices: 568020--568074 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
568010 AAATAAGTAG
568020 AATAAAAGGAAATATAATAGTAAA
1 AATAAAA-GAAATATAATAGTAAA
* *
568044 AATAATAATAAATATAATAGTAAT
1 AATAA-AAGAAATATAATAGTAAA
568068 AATAAAA
1 AATAAAA
568075 ATGCAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.25
Consensus pattern (23 bp):
AATAAAAGAAATATAATAGTAAA
Found at i:568048 original size:12 final size:12
Alignment explanation
Indices: 568033--568072 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
568023 AAAAGGAAAT
568033 ATAATAGTAAAA
1 ATAATAGTAAAA
* *
568045 ATAATAATAAAT
1 ATAATAGTAAAA
*
568057 ATAATAGTAATA
1 ATAATAGTAAAA
568069 ATAA
1 ATAA
568073 AAATGCAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATAGTAAAA
Found at i:568067 original size:6 final size:5
Alignment explanation
Indices: 567969--568068 Score: 50
Period size: 5 Copynumber: 19.8 Consensus size: 5
567959 GAAATTAAAA
* * *
567969 AATAT AATAAT AATAA AATAT AA-AA AATAT ATATAT AATAT AA-AT AAGTAG
1 AATAT AAT-AT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT AA-TAT
* *
568020 AATAA AAGGA- AATAT AATAGT AA-A- AATAAT AATA- AATAT AATAGT
1 AATAT AA-TAT AATAT AATA-T AATAT AAT-AT AATAT AATAT AATA-T
568065 AATA
1 AATA
568069 ATAAAAATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
3 2 0.03
4 12 0.16
5 35 0.47
6 25 0.34
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (5 bp):
AATAT
Found at i:568663 original size:37 final size:37
Alignment explanation
Indices: 568622--568726 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
568612 GTTCTTGTGG
* *
568622 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
* * * *
568659 ATCCTATTTTTAGGAGTTTGAATCTTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
*
568696 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAG
568727 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
Found at i:573746 original size:40 final size:39
Alignment explanation
Indices: 573702--573785 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 39
573692 AGTTGACAAG
*
573702 TTGGTTGGTAGCCAACTTGTACACATTTGAAAATTT-ATCT
1 TTGGTAGGTAGCCAACTTGTACACA--TGAAAATTTCATCT
* * *
573742 TTGGTAGGTGGCCAACTTGTGCACATGAGAATTTCATCT
1 TTGGTAGGTAGCCAACTTGTACACATGAAAATTTCATCT
573781 TTGGT
1 TTGGT
573786 CCCTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 8 0.21
39 9 0.23
40 22 0.56
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (39 bp):
TTGGTAGGTAGCCAACTTGTACACATGAAAATTTCATCT
Found at i:575171 original size:6 final size:6
Alignment explanation
Indices: 575160--576750 Score: 2155
Period size: 6 Copynumber: 274.3 Consensus size: 6
575150 TACATATAGT
575160 TATGTA TATGTA TATGATA TCTATGTA TATGTA TATGTA TATGTATA TATGTA
1 TATGTA TATGTA TATG-TA --TATGTA TATGTA TATGTA TATG--TA TATGTA
575213 TATGT- TATGTA TATGTA TATGTA TATGTATA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATG--TA TATGTA TATGTA TATGTA
575262 TATGTA -ATGTA TATGTA TATGTA TATGT- TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
*
575308 TA--TA T-TGTA TATGTA TATGTA TATGTA TGT-TA TGTATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA --TATGTA TATGTA
575354 TATGTA TATGTA TGTATGTA TATGTA TATGTA TATG-A TATGTA TATGTA
1 TATGTA TATGTA --TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575403 TATG-A TATG-- TATGTA TATGTA TATGTA TATGTA TATGTATA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATG--TA TATGTA
*
575450 TATGT- TATGT- TA--TA TATGTA TATGTA TATGTA TATGGA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575494 TATGTA TATGTA TATGTA TATGTA T-TGTA TATGTATA TATGTA TATGT-
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATG--TA TATGTA TATGTA
575542 TATGTA TATGTA TATGTA TATG-- TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
*
575588 TATGTA TATG-- TATGTA TATGTC TATGTATA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATG--TA TATGTA TATGTA TATGTA
*
575636 TATGTA TA-GTA TATGTA TATGTC TATGTA T-TGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575682 TATGTA TATGTA TATGTA TATG-- TATGTA TATGTA TA-GTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575727 -ATG-- TATG-A TATGTA TATGTA TATG-- TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575769 TATGTA TATGTA TATGTA TATGTA TATG-- TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
*
575815 TATGTA GATGTA TA-GTA TATGTA TATG-- TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575860 TA-GTA TATGTA TATG-- TATGTA TATGTA TATGTA TATG-- TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575903 TATGTA TATG-- TATGTA TATGTTA TATGTA TATGTA TATGTA TATGTTA
1 TATGTA TATGTA TATGTA TATG-TA TATGTA TATGTA TATGTA TATG-TA
*
575951 TATGTA TATG-- TATGTA TATGTA GATGTA TATGTA TATGTA TATG--
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
575995 TATGTA TATGTA TA-GTA TATGTA TATGTA TATGTA -ATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
*
576041 TATGTA TATGTA TATGTA TATG-- TATGTA TATGTA TATGTA TAGGT-
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
* * *
576086 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TGTATG TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
576134 TATGTA TATGTA TA-GTA T-TG-- TATGTA TATG-A TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
576177 TATGTA TATGTA TATGTA TATGGTA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TAT-GTA TATGTA TATGTA TATGTA TATGTA
* * *
576226 TATGTA TGTGTA TATGTA TA-GTA TGTATA TGATGTA TATGTA -ATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA T-ATGTA TATGTA TATGTA
*
576273 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTC
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
* *
576321 TATGTA TATGTA TATG-A TATGTA -ATGTA TATGTA TATGTA TTATATG
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA -TATGTA
576368 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TA-GTA TATGTATA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATG--TA
576417 TATGTA T-TGTA TATGTA TATGTA TATG-- TATGTA TATG-- TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
576460 TATG-- TATGTA TATGTA TATGTA TATGTA TATGTA TATG-- TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
*
576504 TATG-A TATGTC TATGTA TATGTA TATGTA TATGTA TATGTATA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATG--TA TATGTA
576553 TATG-- TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
576599 TATGTA TATGTA T-TGTA TATGTA TATGTA TA-GTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
576645 TA-GTA TATG-- TATGTA TATGTA TATG-- TATGTA TATTGT- TA-GTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TA-TGTA TATGTA
576687 TATGTA TATGTGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TA--TGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
*
576737 T-TGTG TAATGTA TA
1 TATGTA T-ATGTA TA
576751 GTTCTAGAGT
Statistics
Matches: 1437, Mismatches: 36, Indels: 224
0.85 0.02 0.13
Matches are distributed among these distances:
3 2 0.00
4 92 0.06
5 158 0.11
6 1087 0.76
7 37 0.03
8 57 0.04
9 4 0.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
TATGTA
Found at i:575318 original size:9 final size:8
Alignment explanation
Indices: 575197--576727 Score: 395
Period size: 8 Copynumber: 186.4 Consensus size: 8
575187 TATGTATATG
575197 TATATGTA
1 TATATGTA
575205 TATATGTA
1 TATATGTA
*
575213 TATGT-TA
1 TATATGTA
* * *
575220 TGTATATG
1 TATATGTA
575228 TATATG--
1 TATATGTA
575234 TATATGTA
1 TATATGTA
575242 TATATGTA
1 TATATGTA
* *
575250 TATGTATATG
1 TA--TATGTA
575260 TATATGTAA
1 TATATGT-A
* * *
575269 TGTATATG
1 TATATGTA
575277 TATATGTA
1 TATATGTA
*
575285 TATGT-TA
1 TATATGTA
* * *
575292 TGTATATG
1 TATATGTA
575300 TATATGTA
1 TATATGTA
*
575308 TATAT-TG
1 TATATGTA
575315 TATATGTA
1 TATATGTA
* *
575323 TATGTATA
1 TATATGTA
*
575331 TGTATGTTA
1 TATATG-TA
*
575340 TGTATG--
1 TATATGTA
575346 TATATGTA
1 TATATGTA
* *
575354 TATGTATA
1 TATATGTA
*
575362 TGTATGTA
1 TATATGTA
575370 TGTATATGTA
1 --TATATGTA
* *
575380 TATGTATA
1 TATATGTA
575388 TGATATGTA
1 T-ATATGTA
* *
575397 TATGTATA
1 TATATGTA
575405 TGATATGTA
1 T-ATATGTA
575414 TGTATATGTA
1 --TATATGTA
* *
575424 TATGTATATG
1 TA--TATGTA
575434 TATATGTA
1 TATATGTA
575442 TATATGTA
1 TATATGTA
575450 TATGTTATGTTA
1 TA---TATG-TA
575462 TATATG--
1 TATATGTA
575468 TATATGTA
1 TATATGTA
* *
575476 TATGTATA
1 TATATGTA
575484 TGGATATGTA
1 T--ATATGTA
* *
575494 TATGTATATG
1 TA--TATGTA
575504 TATATGTA
1 TATATGTA
*
575512 TATGTAT-TG
1 TA--TATGTA
575521 TATATGTA
1 TATATGTA
575529 TATATGTA
1 TATATGTA
*
575537 TATGT-TA
1 TATATGTA
* * *
575544 TGTATATG
1 TATATGTA
575552 TATATGTA
1 TATATGTA
* * *
575560 TATGTATG
1 TATATGTA
575568 TATATGTA
1 TATATGTA
* *
575576 TATGTATA
1 TATATGTA
* * *
575584 TGTATATG
1 TATATGTA
575592 TATATGTA
1 TATATGTA
* * *
575600 TGTATATG
1 TATATGTA
*
575608 TCTATGTA
1 TATATGTA
575616 TATATG--
1 TATATGTA
575622 TATATG--
1 TATATGTA
575628 TATATGTA
1 TATATGTA
* *
575636 TATGTATA
1 TATATGTA
575644 GTATATGTA
1 -TATATGTA
* *
575653 TATGTCTA
1 TATATGTA
* *
575661 TGTAT-TG
1 TATATGTA
575668 TATATGTA
1 TATATGTA
* *
575676 TATGTATA
1 TATATGTA
* * *
575684 TGTATATG
1 TATATGTA
575692 TATATGTA
1 TATATGTA
* * *
575700 TATGTATG
1 TATATGTA
575708 TATATGTA
1 TATATGTA
* *
575716 TAGTATATG
1 TA-TATGTA
575725 TA-ATGTA
1 TATATGTA
575732 TGATATG--
1 T-ATATGTA
575739 TATATGTA
1 TATATGTA
* * *
575747 TATGTATG
1 TATATGTA
575755 TATATGTA
1 TATATGTA
* *
575763 TATGTATA
1 TATATGTA
* * *
575771 TGTATATG
1 TATATGTA
575779 TATATGTA
1 TATATGTA
* *
575787 TATGTATA
1 TATATGTA
*
575795 TGTATGTA
1 TATATGTA
* *
575803 TATGTATA
1 TATATGTA
* * *
575811 TGTATATG
1 TATATGTA
*
575819 TAGATGTA
1 TATATGTA
* *
575827 TAGTATATG
1 TA-TATGTA
575836 TATATGTA
1 TATATGTA
* * *
575844 TGTATATG
1 TATATGTA
575852 TATATGTA
1 TATATGTA
* *
575860 TAGTATATG
1 TA-TATGTA
575869 TATATGTA
1 TATATGTA
* * *
575877 TGTATATG
1 TATATGTA
575885 TATATGTA
1 TATATGTA
* * *
575893 TATGTATG
1 TATATGTA
575901 TATATGTA
1 TATATGTA
* * *
575909 TATGTATG
1 TATATGTA
575917 TATATGT-
1 TATATGTA
575924 TATATGTA
1 TATATGTA
* *
575932 TATGTATATG
1 TA--TATGTA
575942 TATATGT-
1 TATATGTA
575949 TATATGTA
1 TATATGTA
575957 TATGTATGTA
1 TA--TATGTA
* *
575967 TATGTAGATG
1 TATAT-G-TA
575977 TATATG--
1 TATATGTA
575983 TATATGTA
1 TATATGTA
* * *
575991 TATGTATG
1 TATATGTA
575999 TATATGTA
1 TATATGTA
* *
576007 TAGTATATG
1 TA-TATGTA
576016 TATATGTA
1 TATATGTA
* * *
576024 TATGTAATG
1 TATAT-GTA
576033 TATATGTA
1 TATATGTA
* *
576041 TATGTATA
1 TATATGTA
* * *
576049 TGTATATG
1 TATATGTA
576057 TATATGTA
1 TATATGTA
* * *
576065 TGTATATG
1 TATATGTA
576073 TATATGTA
1 TATATGTA
576081 TAGGTTATGTA
1 TA---TATGTA
* *
576092 TATGTATATG
1 TA--TATGTA
576102 TATATGTA
1 TATATGTA
* *
576110 TATGTATA
1 TATATGTA
*
576118 TGTATGTA
1 TATATGTA
*
576126 TGTATGTA
1 TATATGTA
* *
576134 TATGTATA
1 TATATGTA
*
576142 TGTATAGTA
1 TATAT-GTA
*
576151 TTGTATGTA
1 -TATATGTA
* *
576160 TATGATATG
1 TAT-ATGTA
576169 TATATGTA
1 TATATGTA
* *
576177 TATGTATATG
1 TA--TATGTA
576187 TATATGTA
1 TATATGTA
*
576195 TAT-GGTA
1 TATATGTA
* *
576202 TATGTATATG
1 TA--TATGTA
576212 TATATGTA
1 TATATGTA
* *
576220 TATGTATA
1 TATATGTA
* *
576228 TGTATGTG
1 TATATGTA
576236 TATATGTA
1 TATATGTA
576244 TAGTATGTA
1 TA-TATGTA
576253 TATGATGTA
1 TAT-ATGTA
* * *
576262 TATGTAATG
1 TATAT-GTA
576271 TATATGTA
1 TATATGTA
* *
576279 TATGTATA
1 TATATGTA
* * *
576287 TGTATATG
1 TATATGTA
576295 TATATGTA
1 TATATGTA
* *
576303 TATGTATA
1 TATATGTA
* * *
576311 TGTATATG
1 TATATGTA
*
576319 TCTATGTA
1 TATATGTA
* *
576327 TATGTATA
1 TATATGTA
576335 TGATATGTAA
1 T-ATATGT-A
* * *
576345 TGTATATG
1 TATATGTA
576353 TATATGTA
1 TATATGTA
576361 TTATATGTA
1 -TATATGTA
576370 TGTATATGTA
1 --TATATGTA
* *
576380 TATGTATATG
1 TA--TATGTA
576390 TATATGTA
1 TATATGTA
* *
576398 TATGTATA
1 TATATGTA
576406 GTATATGTA
1 -TATATGTA
576415 TATATGTA
1 TATATGTA
576423 TTGTATATGTA
1 ---TATATGTA
* *
576434 TATGTATA
1 TATATGTA
*
576442 TGTATGTA
1 TATATGTA
* * *
576450 TATGTATG
1 TATATGTA
576458 TATATGTA
1 TATATGTA
* * *
576466 TGTATATG
1 TATATGTA
576474 TATATG--
1 TATATGTA
576480 TATATGTA
1 TATATGTA
* *
576488 TATGTATA
1 TATATGTA
*
576496 TGTATGTA
1 TATATGTA
* *
576504 TATGATATG
1 TAT-ATGTA
*
576513 TCTATGTA
1 TATATGTA
* *
576521 TATGTATA
1 TATATGTA
* * *
576529 TGTATATG
1 TATATGTA
576537 TATATGTA
1 TATATGTA
576545 TATATG--
1 TATATGTA
576551 TATATGTA
1 TATATGTA
* * *
576559 TGTATATG
1 TATATGTA
576567 TATATGTA
1 TATATGTA
* *
576575 TATGTATA
1 TATATGTA
* * *
576583 TGTATATG
1 TATATGTA
576591 TATATGTA
1 TATATGTA
* *
576599 TATGTATA
1 TATATGTA
* *
576607 TGTAT-TG
1 TATATGTA
576614 TATATGTA
1 TATATGTA
* *
576622 TATGTATA
1 TATATGTA
576630 GTATATGTA
1 -TATATGTA
* *
576639 TATGTATA
1 TATATGTA
576647 GTATATGTA
1 -TATATGTA
576656 TGTATATGTA
1 --TATATGTA
576666 TATGTATGTA
1 TA--TATGTA
576676 TAT-TGTTA
1 TATATG-TA
576684 GTATATGTA
1 -TATATGTA
*
576693 TATGTGTA
1 TATATGTA
* *
576701 TATGTATA
1 TATATGTA
* * *
576709 TGTATATG
1 TATATGTA
576717 TATATGTA
1 TATATGTA
576725 TAT
1 TAT
576728 GTATATGTAT
Statistics
Matches: 1060, Mismatches: 369, Indels: 188
0.66 0.23 0.12
Matches are distributed among these distances:
6 52 0.05
7 60 0.06
8 661 0.62
9 147 0.14
10 115 0.11
11 21 0.02
12 4 0.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (8 bp):
TATATGTA
Found at i:585317 original size:36 final size:36
Alignment explanation
Indices: 585276--585351 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
585266 ATTTTCGGGA
*
585276 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
585312 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
585348 TTTT
1 TTTT
585352 TTGCTATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:585779 original size:14 final size:14
Alignment explanation
Indices: 585760--585788 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
585750 TATCACAATC
585760 GCGCAGGATTCCGG
1 GCGCAGGATTCCGG
585774 GCGCAGGATTCCGG
1 GCGCAGGATTCCGG
585788 G
1 G
585789 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.45, T:0.14
Consensus pattern (14 bp):
GCGCAGGATTCCGG
Found at i:592143 original size:45 final size:46
Alignment explanation
Indices: 592073--592390 Score: 430
Period size: 45 Copynumber: 7.0 Consensus size: 46
592063 TAAATCGAAT
*
592073 CCATAATT-AAATGCATGAAATGATGCATTAAGGCATGGAATGATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
* *
592118 GCATAATTAAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
* *
592163 CAATAA-TAAAATGCATGAAAGGATGCATTAAGGCAT-GAAGGATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
* * *
592207 TCATAATTAAAATGCATGAAATGATGCGTTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
* *
592253 CCATAACTAAAATGCATGAAATGATGCATTTAGGCAT-GAAGGATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
* * * * *
592298 CCATAACTAAAATGCATAAAAGGATGCATTAAGGCATGAAAGAATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
* * * *
592344 CCATAATTAAAATGCATGAAATGATACACTAAGGCATGAAATGATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
592390 C
1 C
592391 ACTAAGGCAT
Statistics
Matches: 240, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
44 25 0.10
45 117 0.49
46 98 0.41
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGGAAGGATG
Found at i:592164 original size:20 final size:20
Alignment explanation
Indices: 592085--592633 Score: 267
Period size: 20 Copynumber: 24.7 Consensus size: 20
592075 ATAATTAAAT
*
592085 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * *
592105 GCATGGAATGATGGCATAATTAAAAT
1 GCATGAAAGGAT-GC---ATT--AAG
592131 GCATGAAA-GATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
592150 GCATGAAAGGATGCAATAATAAAAT
1 GCATGAAAGGATGC-AT--T--AAG
592175 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
592195 GCATG-AAGGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
* *
592220 GCATGAAATGATGCGTTAAG
1 GCATGAAAGGATGCATTAAG
*
592240 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
592266 GCATGAAATGATGCATTTAG
1 GCATGAAAGGATGCATTAAG
*
592286 GCATG-AAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
592311 GCATAAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
592331 GCATGAAAGAATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
* * *
592357 GCATGAAATGATACACTAAG
1 GCATGAAAGGATGCATTAAG
* *
592377 GCATGAAATGATGCACTAAG
1 GCATGAAAGGATGCATTAAG
592397 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
592417 GCATGAAAAGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
592437 GCATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGAT-GCAT---T--AAG
*
592463 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
592483 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
592509 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
592529 GCATGAAACGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
592555 GCATGAAACGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
592575 GCATGAAAGGATGCCATAACTAAAT
1 GCATGAAAGGATG-CAT---T-AAG
* *
592600 ACATGAAAGGATGCATTAGG
1 GCATGAAAGGATGCATTAAG
*
592620 GAATGAAAGGATGC
1 GCATGAAAGGATGC
592634 CATGATTAAA
Statistics
Matches: 416, Mismatches: 52, Indels: 122
0.71 0.09 0.21
Matches are distributed among these distances:
19 23 0.06
20 184 0.44
21 19 0.05
22 14 0.03
23 5 0.01
24 22 0.05
25 58 0.14
26 91 0.22
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:592289 original size:91 final size:89
Alignment explanation
Indices: 592073--592383 Score: 460
Period size: 91 Copynumber: 3.4 Consensus size: 89
592063 TAAATCGAAT
* * *
592073 CCATAATTAAATGCATGAAATGATGCATTAAGGCATGGAATGATGGCATAATTAAAATGCATGAA
1 CCATAATAAAATGCATGAAATGATGCATTAAGGCAT-GAAGGATGCCATAATTAAAATGCATGAA
592138 AGATGCATTAAGGCATGAAAGGATG
65 AGATGCATTAAGGCATGAAAGGATG
* * *
592163 CAATAATAAAATGCATGAAAGGATGCATTAAGGCATGAAGGATGTCATAATTAAAATGCATGAAA
1 CCATAATAAAATGCATGAAATGATGCATTAAGGCATGAAGGATGCCATAATTAAAATGCATGAAA
*
592228 TGATGCGTTAAGGCATGAAAGGATG
66 -GATGCATTAAGGCATGAAAGGATG
* * *
592253 CCATAACTAAAATGCATGAAATGATGCATTTAGGCATGAAGGATGCCATAACTAAAATGCATAAA
1 CCATAA-TAAAATGCATGAAATGATGCATTAAGGCATGAAGGATGCCATAATTAAAATGCATGAA
*
592318 AGGATGCATTAAGGCATGAAAGAATG
65 A-GATGCATTAAGGCATGAAAGGATG
* *
592344 CCATAATTAAAATGCATGAAATGATACACTAAGGCATGAA
1 CCATAA-TAAAATGCATGAAATGATGCATTAAGGCATGAA
592384 ATGATGCACT
Statistics
Matches: 200, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
89 27 0.14
90 61 0.31
91 112 0.56
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (89 bp):
CCATAATAAAATGCATGAAATGATGCATTAAGGCATGAAGGATGCCATAATTAAAATGCATGAAA
GATGCATTAAGGCATGAAAGGATG
Found at i:592484 original size:46 final size:46
Alignment explanation
Indices: 592377--592673 Score: 374
Period size: 46 Copynumber: 6.6 Consensus size: 46
592367 ATACACTAAG
* * *
592377 GCATGAAATGATGCACTAAGGCATGAAAGGATG-C---ATT--AAG
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* * *
592417 GCATGAAAAGATGCATTAAGGCATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
*
592463 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* *
592509 GCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* *
592555 GCATGAAACGATGCATTAAGGCATGAAAGGATGCCATAACT-AAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* * * *
592600 ACATGAAAGGATGCATTAGGGAATGAAAGGATGCCATGATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* * * *
592646 GTATGAACGGATGTATTAATGCATGAAA
1 GCATGAAAGGATGCATTAAGGCATGAAA
592674 TAGACCCTAA
Statistics
Matches: 222, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
40 30 0.14
41 1 0.00
44 2 0.01
45 39 0.18
46 150 0.68
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
Found at i:592560 original size:198 final size:194
Alignment explanation
Indices: 592220--592633 Score: 271
Period size: 198 Copynumber: 2.1 Consensus size: 194
592210 TAATTAAAAT
* ** * * *
592220 GCATGAAATGATGCGTTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTTA
1 GCATGAAAGGATGCACTAAGGCATGAAAGGATG-CAT---T--AAGGCATGAAAAGATGCATTAA
* * * *
592285 GGCATG-AAGGATGCCATAACTAAAATGCATAAAAGGATGCATTAAGGCATGAAAGAATGCCATA
60 GGCATGAAAGGATACCATAACTAAAATGCATGAAATGATGCATTAAGGCATG-AAGGATGCCATA
* * * * * * * * *
592349 ATTAAAATGCATGAAATGATACACTAAGGCATGAAATG-ATG-C-ACT-AAGGCATGAAAGGATG
124 ACTAAAATGCATAAAAGGATGCATTAAGGCATGAAA-GAATGCCAATTAAATGCATGAAACGATA
*
592410 CATTAAG
188 CACTAAG
* * * * *
592417 GCATGAAAAGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAAATGATGCATTAA
1 GCATGAAAGGATGCACTAAGGCATGAAAGGAT-GCAT---T--AAGGCATGAAAAGATGCATTAA
* * * * *
592482 GGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAACGATGTCATA
60 GGCATGAAAGGATACCATAACTAAAATGCATGAAATGATGCATTAAGGCATG-AAGGATGCCATA
* * * * * * *
592547 ATTAAAATGCATGAAACGATGCATTAAGGCATGAAAGGATGCCATAACTAAATACATGAAAGGAT
124 ACTAAAATGCATAAAAGGATGCATTAAGGCATGAAAGAATGCC--AATTAAATGCATGAAACGAT
* * *
592612 GCATTAGG
187 ACACTAAG
*
592620 GAATGAAAGGATGC
1 GCATGAAAGGATGC
592634 CATGATTAAA
Statistics
Matches: 192, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
197 67 0.35
198 89 0.46
199 1 0.01
202 3 0.02
203 32 0.17
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.21
Consensus pattern (194 bp):
GCATGAAAGGATGCACTAAGGCATGAAAGGATGCATTAAGGCATGAAAAGATGCATTAAGGCATG
AAAGGATACCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAGGATGCCATAACTAAAA
TGCATAAAAGGATGCATTAAGGCATGAAAGAATGCCAATTAAATGCATGAAACGATACACTAAG
Found at i:592652 original size:137 final size:138
Alignment explanation
Indices: 592377--592673 Score: 410
Period size: 137 Copynumber: 2.2 Consensus size: 138
592367 ATACACTAAG
* * * *
592377 GCATGAAATGATGCACTAAGGCATGAAAGGATG-C---ATT--AAGGCATGAAAAGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAATGCATGAAAAGATGCATTAA
* * *
592436 GGCATGAAAGGATACCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATA
66 GGCATGAAAGGATACCATAACTAAAATACATGAAAGGATGCATTAAGGAATGAAAGGATGCCATA
592501 ATTAAAAT
131 ATTAAAAT
*
592509 GCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAATGCATGAAACGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAATGCATGAAAAGATGCATTAA
* * *
592574 GGCATGAAAGGATGCCATAACT-AAATACATGAAAGGATGCATTAGGGAATGAAAGGATGCCATG
66 GGCATGAAAGGATACCATAACTAAAATACATGAAAGGATGCATTAAGGAATGAAAGGATGCCATA
592638 ATTAAAAT
131 ATTAAAAT
* * * *
592646 GTATGAACGGATGTATTAATGCATGAAA
1 GCATGAAAGGATGCATTAAGGCATGAAA
592674 TAGACCCTAA
Statistics
Matches: 144, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
132 30 0.21
133 1 0.01
136 3 0.02
137 69 0.48
138 41 0.28
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (138 bp):
GCATGAAAGGATGCATTAAGGCATGAAACGATGTCATAATTAAAATGCATGAAAAGATGCATTAA
GGCATGAAAGGATACCATAACTAAAATACATGAAAGGATGCATTAAGGAATGAAAGGATGCCATA
ATTAAAAT
Found at i:610980 original size:20 final size:20
Alignment explanation
Indices: 610951--611332 Score: 147
Period size: 26 Copynumber: 16.7 Consensus size: 20
610941 TAATTAAAAT
610951 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
610971 GCATGGAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
610997 GAATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
611017 GCATGAAAGGATACCATAATTAAAAT
1 GCATGAAAGGAT-GC---ATT--AAG
*
611043 GCATGAAAGCATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
611063 GCATGAAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
611089 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
611109 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
611135 GCATGAAAAGATGAATTAAG
1 GCATGAAAGGATGCATTAAG
* *
611155 GCATGAAAAGATGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
* *
611181 GCATGAAAGGACGTCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
611207 GCATGAAATGG-TGCATTAAG
1 GCATGAAA-GGATGCATTAAG
*
611227 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
611253 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
611273 GCATGAAAGGATGCCACAATTAAAATG
1 GCATGAAAGGATG---C-ATT--AA-G
*
611300 G-ATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
611319 GCACGAAAGGATGC
1 GCATGAAAGGATGC
611333 CATAATTTAA
Statistics
Matches: 287, Mismatches: 29, Indels: 92
0.70 0.07 0.23
Matches are distributed among these distances:
19 4 0.01
20 108 0.38
21 9 0.03
22 17 0.06
23 2 0.01
24 17 0.06
25 9 0.03
26 117 0.41
27 4 0.01
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:611006 original size:46 final size:46
Alignment explanation
Indices: 610939--611191 Score: 425
Period size: 46 Copynumber: 5.5 Consensus size: 46
610929 AAACCGAATC
*
610939 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGGAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
* **
610985 CATAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATAC
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
*
611031 CATAATTAAAATGCATGAAAGCATGCATTAAGGCATGAAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
611077 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
* * * *
611123 CATAACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGT
1 CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
611169 CATAATTAAAATGCATGAAAGGA
1 CATAATTAAAATGCATGAAAGGA
611192 CGTCATAATT
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 192 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (46 bp):
CATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
Found at i:611187 original size:118 final size:118
Alignment explanation
Indices: 611063--611311 Score: 410
Period size: 118 Copynumber: 2.1 Consensus size: 118
611053 ATGCATTAAG
611063 GCATGAAAGGATGTCATAATTAAAATGCATGAAA-GGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGATGTCATAATTAAAATGCATGAAATGG-TGCATTAAGGCATGAAAGGATGTCATA
* *
611127 ACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGTCATAATTAAAAT
65 ACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
*
611181 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGATGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
* * *
611246 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAATTAAAAT
66 CTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
* *
611299 GGATGAAATGATG
1 GCATGAAAGGATG
611312 CATTAAGGCA
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
118 119 0.98
119 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (118 bp):
GCATGAAAGGATGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
CTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
Found at i:611202 original size:164 final size:162
Alignment explanation
Indices: 611017--611379 Score: 528
Period size: 164 Copynumber: 2.2 Consensus size: 162
611007 ATGCATTAAG
*
611017 GCATGAAAGGATACCATAATTAAAATGCATGAAAGCATGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGA-ATCATAATTAAAATGCATGAAAG-ATGCATTAAGGCATGAAAGGATGTCATAA
* * *
611082 TTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAAAGAT
64 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAAAAGAT
* *
611147 GAATTAAGGCATGAAAAGATGTCATAATTAAAAT
129 GAATTAAGGCACGAAAAGATGCCATAATTAAAAT
* *
611181 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGA-ATCATAATTAAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATGTCATAA
* * *
611246 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAATTAAAATGGATGAAATGAT
64 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAAAAGAT
* * *
611311 GCATTAAGGCACGAAAGGATGCCATAATTTAAAT
129 GAATTAAGGCACGAAAAGATGCCATAATTAAAAT
* * *
611345 GCATGAAAGGATTCCATAACTAAAATGCGTGAAAG
1 GCATGAAAGGAAT-CATAATTAAAATGCATGAAAG
611380 GATGTCATAA
Statistics
Matches: 179, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
163 2 0.01
164 176 0.98
165 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (162 bp):
GCATGAAAGGAATCATAATTAAAATGCATGAAAGATGCATTAAGGCATGAAAGGATGTCATAACT
AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAACTAAAATGCATGAAAAGATGA
ATTAAGGCACGAAAAGATGCCATAATTAAAAT
Found at i:611231 original size:46 final size:46
Alignment explanation
Indices: 611181--611352 Score: 247
Period size: 46 Copynumber: 3.7 Consensus size: 46
611171 TAATTAAAAT
* *
611181 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGGTGCATTAAG
* *
611227 GCATGAAAGGATGTCATAACTAAAATGCATGAAA-GGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGG-TGCATTAAG
* * *
611273 GCATGAAAGGATGCCACAATTAAAATGGATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGGTGCATTAAG
* *
611319 GCACGAAAGGATGCCATAATTTAAATGCATGAAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAA
611353 GGATTCCATA
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.02
46 110 0.97
47 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAATGGTGCATTAAG
Found at i:611349 original size:118 final size:115
Alignment explanation
Indices: 611063--611383 Score: 330
Period size: 118 Copynumber: 2.7 Consensus size: 115
611053 ATGCATTAAG
* * *
611063 GCATGAAAGGATGTCATAATTAAAATGCATGAAA-GGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGACGTC--AATT-AAAGGCACGAAATGG-TGCATTAAGGCATGAAAGGATGTCATA
* * *
611127 ACTAAAATGCATGAAAAGATGAATTAAGGCATGAAAAGATGTCATAATTAAAAT
62 ACTAAAATGCATGAAAGGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
* *
611181 GCATGAAAGGACGTCATAATTAAAATGCATGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGACGTC--AATT-AAAGGCACGAAATGGTGCATTAAGGCATGAAAGGATGTCATAA
* *
611246 CTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCACAATTAAAAT
63 CTAAAATGCATGAAAGGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
* * * *
611299 GGATGAAATGATG-C-ATT-AAGGCACGAAA-GGATGCCATAATTTAAATGCATGAAAGGAT-TC
1 GCATGAAAGGACGTCAATTAAAGGCACGAAATGG-TG-C---A-TT-AAGGCATGAAAGGATGT-
*
611359 CATAACTAAAATGCGTGAAAGGATG
58 CATAACTAAAATGCATGAAAGGATG
611384 TCATAATTAA
Statistics
Matches: 181, Mismatches: 13, Indels: 18
0.85 0.06 0.08
Matches are distributed among these distances:
111 2 0.01
112 11 0.06
113 1 0.01
114 3 0.02
116 1 0.01
117 4 0.02
118 157 0.87
119 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (115 bp):
GCATGAAAGGACGTCAATTAAAGGCACGAAATGGTGCATTAAGGCATGAAAGGATGTCATAACTA
AAATGCATGAAAGGATGAATTAAGGCATGAAAAGATGCCACAATTAAAAT
Found at i:614600 original size:2 final size:2
Alignment explanation
Indices: 614591--614686 Score: 81
Period size: 2 Copynumber: 54.0 Consensus size: 2
614581 AAAATAAAAA
*
614591 AT AT -T AT AT AT -T AT AT AT A- AT -T A- AT AT A- AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
614627 AA AT -T AT -T AT AT AT AT A- AT -T A- AT AT A- AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
614663 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
614687 CAGGGCGGGG
Statistics
Matches: 78, Mismatches: 4, Indels: 24
0.74 0.04 0.23
Matches are distributed among these distances:
1 12 0.15
2 66 0.85
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:614645 original size:34 final size:35
Alignment explanation
Indices: 614565--614679 Score: 151
Period size: 34 Copynumber: 3.2 Consensus size: 35
614555 GGGTTTGTAT
* *
614565 TATATAATTAATATAAAAAATAAAAAATATTATATATTA
1 TATATAATTAATAT--AAAATATATAA-ATTATATA-TA
614604 TATATAATTAATATAAAATATATAAATTAT-TATA
1 TATATAATTAATATAAAATATATAAATTATATATA
*
614638 TATATAATTAATATAAAATATATATATATATATATA
1 TATATAATTAATATAAAATATATAAAT-TATATATA
614674 TATATA
1 TATATA
614680 TATATATCAG
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
34 28 0.39
35 5 0.07
36 15 0.21
37 9 0.13
39 14 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (35 bp):
TATATAATTAATATAAAATATATAAATTATATATA
Found at i:615496 original size:31 final size:32
Alignment explanation
Indices: 615461--615521 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
615451 AAAATTTATT
* *
615461 TTTTAATTTAATTACT-TAACTTTCAAATTAC
1 TTTTAATTTAATCACTCTAAATTTCAAATTAC
*
615492 TTTTAATTTAATCACTCTAAATTTTAAATT
1 TTTTAATTTAATCACTCTAAATTTCAAATT
615522 TATTTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTTAATTTAATCACTCTAAATTTCAAATTAC
Found at i:617807 original size:50 final size:50
Alignment explanation
Indices: 617747--617867 Score: 233
Period size: 50 Copynumber: 2.4 Consensus size: 50
617737 GTCTTAACTC
*
617747 TAATTTCTAATAAAATAATAATAACTAAATATAATGTTTTAACTCATCCT
1 TAATTCCTAATAAAATAATAATAACTAAATATAATGTTTTAACTCATCCT
617797 TAATTCCTAATAAAATAATAATAACTAAATATAATGTTTTAACTCATCCT
1 TAATTCCTAATAAAATAATAATAACTAAATATAATGTTTTAACTCATCCT
617847 TAATTCCTAATAAAATAATAA
1 TAATTCCTAATAAAATAATAA
617868 ATCTAATCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (50 bp):
TAATTCCTAATAAAATAATAATAACTAAATATAATGTTTTAACTCATCCT
Found at i:632913 original size:23 final size:23
Alignment explanation
Indices: 632870--632913 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
632860 TCAATCCTAT
* **
632870 ATGAATTTCCATGTTTGCCATTA
1 ATGAATTTCCATATTCACCATTA
632893 ATGAATTTCCATATTCACCAT
1 ATGAATTTCCATATTCACCAT
632914 AAAACCAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (23 bp):
ATGAATTTCCATATTCACCATTA
Found at i:635525 original size:60 final size:60
Alignment explanation
Indices: 635451--635596 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 60
635441 CCCTCATTTT
* * *
635451 AAATTAGCCCTTAAACCTTTGAATATTCTAATTTTATC-CATAAACTATGACTCCCATTCC
1 AAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCTC-TAAACTATGACCCCCATTCC
* * * * * *
635511 AAATTAGTCCTTAAACTTTTAAACATTTTAATTTTATCTCTAACCTATGACCCCCTTTCT
1 AAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCTCTAAACTATGACCCCCATTCC
* *
635571 AATTTAGTCTCCT-AACTTTTGAATAT
1 AAATTAGTC-CTTAAACTTTTGAATAT
635597 GCCAATTTCA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
60 68 0.96
61 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.41
Consensus pattern (60 bp):
AAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCTCTAAACTATGACCCCCATTCC
Found at i:643106 original size:65 final size:64
Alignment explanation
Indices: 642993--643148 Score: 197
Period size: 65 Copynumber: 2.4 Consensus size: 64
642983 ATAAGACCTA
* * * *
642993 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTGCAACGATGCATGGTAT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAACCAGGAGTGCAACGATGCATGG-AT
* * * * **
643058 GTGCATTGGTACATAAAATGCATTCGATGTTTCAATAA-AATCATGAGTGCGTCGATGCATGGAT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAA-AAGAACCAGGAGTGCAACGATGCATGGAT
643122 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
643149 ATTAGGGTAC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 27 0.35
65 49 0.63
66 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAACCAGGAGTGCAACGATGCATGGAT
Found at i:643504 original size:13 final size:13
Alignment explanation
Indices: 643488--643521 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
643478 TATGATTTTA
*
643488 TTTGAAAATCATT
1 TTTGAAAATCAAT
643501 TTTG-AAATCAAT
1 TTTGAAAATCAAT
643513 TTTGAAAAT
1 TTTGAAAAT
643522 TACTCTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:643867 original size:29 final size:28
Alignment explanation
Indices: 643812--643878 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
643802 CATCCAAAAC
*
643812 ATATTCAAAA-CAAACAATCCAAACTAA
1 ATATTCAAAATCAAACAATACAAACTAA
643839 ATATTCAAAATCCAAACAA-ACAAAGCTAA
1 ATATTCAAAAT-CAAACAATACAAA-CTAA
643868 ATATTCAAAAT
1 ATATTCAAAAT
643879 GTTTAAACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 10 0.28
28 4 0.11
29 22 0.61
ACGTcount: A:0.58, C:0.19, G:0.01, T:0.21
Consensus pattern (28 bp):
ATATTCAAAATCAAACAATACAAACTAA
Found at i:645834 original size:23 final size:23
Alignment explanation
Indices: 645808--645866 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
645798 AAGAGTGTAT
645808 CGATGCACATTCAAAGAATGCAG
1 CGATGCACATTCAAAGAATGCAG
*
645831 CGATGCACATTCAAAGAATGCAT
1 CGATGCACATTCAAAGAATGCAG
*
645854 CGATGCACCTTCA
1 CGATGCACATTCA
645867 TAGTGTATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (23 bp):
CGATGCACATTCAAAGAATGCAG
Found at i:646333 original size:15 final size:15
Alignment explanation
Indices: 646315--646348 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
646305 ACATCTCCTT
*
646315 TAATGACATGATCTC
1 TAATGAAATGATCTC
*
646330 TAATGAAATGATGTC
1 TAATGAAATGATCTC
646345 TAAT
1 TAAT
646349 TTCAATGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (15 bp):
TAATGAAATGATCTC
Found at i:651781 original size:65 final size:64
Alignment explanation
Indices: 651711--651842 Score: 185
Period size: 65 Copynumber: 2.0 Consensus size: 64
651701 CACTAATTAT
* * *
651711 ATTCAATGTTTCAA-AAGAGCCATGAGTACATCGATGCATGGTCTGTGCATCGGTACATAAAATA
1 ATTCAATGTTTCAATAA-AACCATGAGTACATCGATGCATGG-ATGTGCATCGGTACACAAAATA
651775 C
64 C
* * *
651776 ATTCAATGTTTCAATAAAATCATGAGTGCATCGATGCATGGATGTGCATCGGTACACAAAATGC
1 ATTCAATGTTTCAATAAAACCATGAGTACATCGATGCATGGATGTGCATCGGTACACAAAATAC
651840 ATT
1 ATT
651843 TGAATTAGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
64 23 0.38
65 35 0.58
66 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (64 bp):
ATTCAATGTTTCAATAAAACCATGAGTACATCGATGCATGGATGTGCATCGGTACACAAAATAC
Found at i:652409 original size:20 final size:21
Alignment explanation
Indices: 652380--652449 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 21
652370 TGAGTAGAGT
*
652380 AGTATTGATACTTTAAACT-A
1 AGTATCGATACTTTAAACTGA
* ** *
652400 AGTATCGATAGTTTTTACTGG
1 AGTATCGATACTTTAAACTGA
*
652421 AGTATCGATAC-TT-ACCTG-
1 AGTATCGATACTTTAAACTGA
652439 AGTATCGATAC
1 AGTATCGATAC
652450 CAAATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 11 0.27
19 3 0.07
20 17 0.41
21 10 0.24
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (21 bp):
AGTATCGATACTTTAAACTGA
Found at i:653302 original size:45 final size:46
Alignment explanation
Indices: 653202--653302 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
653192 ATAATGCATC
* * * *
653202 ATTATGCATTTTAATTATGGCATCCCTTCATGCCCTTTTATACGCT
1 ATTATACATTTCAATTATGGCATCCCTTCATGCCCATTTATACACT
* * *
653248 ATTATACATTTCATTTATGTCATCCTTTCATG-CCATTTATACACT
1 ATTATACATTTCAATTATGGCATCCCTTCATGCCCATTTATACACT
653293 ATTATACATT
1 ATTATACATT
653303 GTTCTACATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 21 0.44
46 27 0.56
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (46 bp):
ATTATACATTTCAATTATGGCATCCCTTCATGCCCATTTATACACT
Found at i:653451 original size:80 final size:81
Alignment explanation
Indices: 653318--653564 Score: 370
Period size: 81 Copynumber: 3.1 Consensus size: 81
653308 ACATTTAGTA
* * * *
653318 TTTTACTTAAAGGCATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAAAGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
*
653383 CGCTA-GCTATTAATC
66 AGCTACGCTATTAATC
* *
653398 TTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
* * *
653463 AACAAGGCTATTAATC
66 AGCTACGCTATTAATC
* *
653479 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCAT
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
*
653544 AGCTACGCCATTAATC
66 AGCTACGCTATTAATC
653560 TTTTA
1 TTTTA
653565 TTTTTGAATA
Statistics
Matches: 149, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 61 0.41
81 88 0.59
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
AGCTACGCTATTAATC
Found at i:653843 original size:55 final size:55
Alignment explanation
Indices: 653728--653951 Score: 292
Period size: 54 Copynumber: 4.1 Consensus size: 55
653718 TATACGATAG
* * * * *
653728 TTCATCAACTCATGATGAATTTTGTGG-GTTACACACCTCGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTA
* *
653782 TTCATCAACT-ATTGATGAATTTTGTGGATTTGCACACATAGTACATGTACGGTTA
1 TTCATCAACTCA-TGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTA
*
653837 TTCATCAACTCATGATGAA-TTCGTGGATTTGCACACATAGTGCATGTACAGTTA
1 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTA
** * * * *
653891 TTCATCAACTCATGATGAATCCCGTAGATATGCACACATAGTGCCTGTATGGTTA
1 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTA
653946 TTCATC
1 TTCATC
653952 CACATAGGAT
Statistics
Matches: 151, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 76 0.50
55 73 0.48
56 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (55 bp):
TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTA
Found at i:653894 original size:109 final size:109
Alignment explanation
Indices: 653728--653951 Score: 290
Period size: 109 Copynumber: 2.1 Consensus size: 109
653718 TATACGATAG
* * * *
653728 TTCATCAACTCATGATGAATTTTGTGGGTTACACACCTCGTGCATGTACGGTTATTCATCAACT-
1 TTCATCAACTCATGATGAATTTCGTGGGTTACACACATAGTGCATGTACAGTTATTCATCAACTC
*** * *
653792 ATTGATGAATTTTGTGGATTTGCACACATAGTACATGTACGGTTA
66 A-TGATGAATCCCGTAGATATGCACACATAGTACATGTACGGTTA
* *
653837 TTCATCAACTCATGATGAA-TTCGTGGATTTGCACACATAGTGCATGTACAGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTTCGTGG-GTTACACACATAGTGCATGTACAGTTATTCATCAACT
* * *
653901 CATGATGAATCCCGTAGATATGCACACATAGTGCCTGTATGGTTA
65 CATGATGAATCCCGTAGATATGCACACATAGTACATGTACGGTTA
653946 TTCATC
1 TTCATC
653952 CACATAGGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
108 6 0.06
109 92 0.93
110 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (109 bp):
TTCATCAACTCATGATGAATTTCGTGGGTTACACACATAGTGCATGTACAGTTATTCATCAACTC
ATGATGAATCCCGTAGATATGCACACATAGTACATGTACGGTTA
Found at i:653987 original size:109 final size:109
Alignment explanation
Indices: 653778--654221 Score: 408
Period size: 108 Copynumber: 4.1 Consensus size: 109
653768 TGCATGTACG
** * * * *
653778 GTTATTCATCAACTATTGATGAATTTTGTGGATTTGCACACATAGTACATG-TACGGTTATTCAT
1 GTTATTCATCAACTATTGATGAATTCCGT-GATATGCACACATAGTGCCTGAAACGGTTATTCAT
* * ** * *
653842 CAAC-TCATGATGAATTC-GTGGATTTGCACACATAGTGCATG-TACA
65 CCACAT-AGGATGAATTCAGT-GAAATGCACACTTAGTGC-TGAAACA
* * *
653887 GTTATTCATCAACTCA-TGATGAATCCCGTAGATATGCACACATAGTGCCTG-TATGGTTATTCA
1 GTTATTCATCAACT-ATTGATGAATTCCGT-GATATGCACACATAGTGCCTGAAACGGTTATTCA
*
653950 TCCACATAGGATGAATTCAGTGAAATGAACACTTAGTG-TCGAAACA
64 TCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCT-GAAACA
* * * * * *
653996 GATATTCATCCAC-ATTGGATGAATTTCGTGAAATTCACACTTAGTGCC-GAAACGGTTATTCAT
1 GTTATTCATCAACTATT-GATGAATTCCGTGATATGCACACATAGTGCCTGAAACGGTTATTCAT
* * *
654059 CCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
65 CCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCTGAAACA
* * * * * *
654104 GTTATTCATCCAC-ATAGGATGAATTCTGTGA-AGTGCACACTTAGT-TCTGAAATGGTTATTCA
1 GTTATTCATCAACTAT-TGATGAATTCCGTGATA-TGCACACATAGTGCCTGAAACGGTTATTCA
* * *
654166 TCCATATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAACG
64 TCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCTGAAACA
654212 GTTATTCATC
1 GTTATTCATC
654222 CACATAGGAT
Statistics
Matches: 286, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
107 5 0.02
108 173 0.60
109 104 0.36
110 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (109 bp):
GTTATTCATCAACTATTGATGAATTCCGTGATATGCACACATAGTGCCTGAAACGGTTATTCATC
CACATAGGATGAATTCAGTGAAATGCACACTTAGTGCTGAAACA
Found at i:654006 original size:54 final size:54
Alignment explanation
Indices: 653941--654259 Score: 487
Period size: 54 Copynumber: 5.9 Consensus size: 54
653931 GTGCCTGTAT
* *
653941 GGTTATTCATCCACATAGGATGAATTCAGTGAAATGAACACTTAGTGTCGAAAC
1 GGTTATTCATCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAAC
* * * *
653995 AGATATTCATCCACATTGGATGAATTTC-GTGAAATTCACACTTAGTGCCGAAAC
1 GGTTATTCATCCACATAGGATGAA-TTCAGTGAAATGCACACTTAGTGCCGAAAC
*
654049 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAC
1 GGTTATTCATCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAAC
* * * * *
654103 GGTTATTCATCCACATAGGATGAATTCTGTGAAGTGCACACTTAGTTCTGAAAT
1 GGTTATTCATCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAAC
*
654157 GGTTATTCATCCATATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAAC
1 GGTTATTCATCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAAC
* *
654211 GGTTATTCATCCACATAGGATGAATTAAGTGAAATTCACACTTAGTGCC
1 GGTTATTCATCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCC
654260 TATTTGGTAA
Statistics
Matches: 239, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
53 3 0.01
54 233 0.97
55 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (54 bp):
GGTTATTCATCCACATAGGATGAATTCAGTGAAATGCACACTTAGTGCCGAAAC
Found at i:654120 original size:162 final size:162
Alignment explanation
Indices: 653887--654260 Score: 504
Period size: 162 Copynumber: 2.3 Consensus size: 162
653877 TGCATGTACA
* * * * * * *
653887 GTTATTCATCAAC-TCATGATGAATCCCGTAGATATGCACACATAGTGCCTGTATGGTTATTCAT
1 GTTATTCATCCACAT-AGGATGAATTCCGT-GAAATGCACACTTAGTGCCTGAACGGTTATTCAT
*
653951 CCACATAGGATGAATTCAGTGAAATGAACACTTAGTGTC-GAAACAGATATTCATCCACATTGGA
64 CCACATAGGATGAATTCAGTGAAATGAACACTTAGT-TCTGAAACAGATATTCATCCACATAGGA
*
654015 TGAATTTC-GTGAAATTCACACTTAGTGCCGAAACG
128 TGAA-TTCAGTGAAATGCACACTTAGTGCCGAAACG
654050 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC-GAAACGGTTATTCATC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCTG-AACGGTTATTCATC
* * * ** * *
654114 CACATAGGATGAATTCTGTGAAGTGCACACTTAGTTCTGAAATGGTTATTCATCCATATAGGATG
65 CACATAGGATGAATTCAGTGAAATGAACACTTAGTTCTGAAACAGATATTCATCCACATAGGATG
654179 AATTCAGTGAAATGCACACTTAGTGCCGAAACG
130 AATTCAGTGAAATGCACACTTAGTGCCGAAACG
** *
654212 GTTATTCATCCACATAGGATGAATTAAGTGAAATTCACACTTAGTGCCT
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCT
654261 ATTTGGTAAT
Statistics
Matches: 187, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
161 6 0.03
162 156 0.83
163 24 0.13
164 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (162 bp):
GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCTGAACGGTTATTCATCC
ACATAGGATGAATTCAGTGAAATGAACACTTAGTTCTGAAACAGATATTCATCCACATAGGATGA
ATTCAGTGAAATGCACACTTAGTGCCGAAACG
Found at i:654703 original size:95 final size:95
Alignment explanation
Indices: 654586--654807 Score: 288
Period size: 95 Copynumber: 2.3 Consensus size: 95
654576 TGGCTCCATA
* * * *
654586 GTATCGATACTAC-TACCCTGGTA-CTGATACTTCTATACTATGGTACCGATACCCCATTCC-GA
1 GTATCGATAC-CCTTACCATGGTATC-GATACTACCATACTATGGTACCGATACCCCATTCCAG-
* * * *
654648 TATCGATACTAGTTTTAGGTTCGATGTTGCCTG
63 TATCGATACCAATTTTAGATTCGATGTAGCCTG
* *
654681 GTATCGATACCCTTACCATGGTATCGATACTACCATATTATGGTACCGATACCCCCTTCCAGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCATTCCAGTAT
* *
654746 CGATACCAATTTTAGATTTGATGTAGCTTG
66 CGATACCAATTTTAGATTCGATGTAGCCTG
654776 GTATCGATACCCTTACCATGGTATCGATACTA
1 GTATCGATACCCTTACCATGGTATCGATACTA
654808 TCTTGTGGTA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
94 1 0.01
95 109 0.97
96 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCATTCCAGTAT
CGATACCAATTTTAGATTCGATGTAGCCTG
Found at i:658601 original size:46 final size:45
Alignment explanation
Indices: 658551--658651 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
658541 ATAATGCATC
* * * *
658551 ATTATGCATTTTAATTATGGCATCCC-TCCATGCCCTTTTATACGCT
1 ATTATACATTTCAATTATGGCA-CCCTTCCATG-ACTTTTATACACT
* *
658597 ATTATACATTTCATTTATGGCACCCTTTCATGACTTTTATACACT
1 ATTATACATTTCAATTATGGCACCCTTCCATGACTTTTATACACT
658642 ATTATACATT
1 ATTATACATT
658652 GTTATACATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 24 0.50
46 24 0.50
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (45 bp):
ATTATACATTTCAATTATGGCACCCTTCCATGACTTTTATACACT
Found at i:658854 original size:81 final size:81
Alignment explanation
Indices: 658665--658913 Score: 374
Period size: 81 Copynumber: 3.1 Consensus size: 81
658655 ATACATCAAG
* * * * * *
658665 TCTTTTACTTAAAGGCATTTAACCTTTTATCTAACTGGAATGATTGACACCTTTCTGTCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
658730 ACAACTA-GCTATTAA
66 ACAGCTAGGCTATTAA
* *
658745 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATAATTGACAGCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
658810 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* *
658826 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATTAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
658891 ACAGCTAGGCCACTAA
66 ACAGCTAGGCTATTAA
658907 TCTTTTA
1 TCTTTTA
658914 TTTTGGATAC
Statistics
Matches: 153, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
80 63 0.41
81 90 0.59
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCTATTAA
Found at i:659165 original size:55 final size:55
Alignment explanation
Indices: 659061--659479 Score: 547
Period size: 55 Copynumber: 7.6 Consensus size: 55
659051 TATACGATAG
* * ** * * * *
659061 TTCATCAACTCACGATGAATTCTTTGG-GTTGCACACCTCGTGCTTGTACGGTTA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
*
659115 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCTTGTACGGTTA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
* *
659170 TTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
* * *
659225 TTCATCAAC-ACATGATGAATTCTGTAGATTTGTACACATAGTGCATGTACGGTTA
1 TTCATCAACTA-ATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
* ** *
659280 TTCATCAACTAATGATAAATTCTATGGATTTGCACACATAGTGCATGTATGGTTA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
* * **
659335 TTCATCAAC-ACATGATGAATTACGTGGATTTGCGCACATAGTGTTTGTACGGTTA
1 TTCATCAACTA-ATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
* * *
659390 TTCATCAACTAATGTTGAATTCCATAGATTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
* **
659445 TTCATCAACTCATGATGAATTATGTGGATTTGCAC
1 TTCATCAACTAATGATGAATTCCGTGGATTTGCAC
659480 CAGTGAAATG
Statistics
Matches: 319, Mismatches: 41, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
54 24 0.08
55 293 0.92
56 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (55 bp):
TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTA
Found at i:659570 original size:54 final size:54
Alignment explanation
Indices: 659495--659659 Score: 240
Period size: 54 Copynumber: 3.1 Consensus size: 54
659485 AAATGTACAC
* * * *
659495 AGTGTCGAAATGGTTATTCATCCACATAGAATGAATTCTGTAAAATGCACACTT
1 AGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTAAAATGCACACTT
* *
659549 AGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTT
1 AGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTAAAATGCACACTT
* * * *
659603 AGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCATGAAATGCACACAT
1 AGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTAAAATGCACACTT
659657 AGT
1 AGT
659660 ACCTATTTGG
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (54 bp):
AGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTAAAATGCACACTT
Found at i:660160 original size:95 final size:95
Alignment explanation
Indices: 659987--660207 Score: 250
Period size: 95 Copynumber: 2.3 Consensus size: 95
659977 TCTGGCTCCA
* * * * * *
659987 TAGTATCGATACTAC-TACCCTGGTACCGATACTTCTATACTATGGTATCGATACCCCCTTTCGG
1 TAGTATCGATAC-CCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTTCGG
* * *
660051 TATCGATGCCAATTTTA-AGTTCGATATTGCC
65 TATCAATACAAATTTTAGA-TTCGATATTGCC
* *
660082 TAGTATTGATACCCTTACCATGGTATCGATACTACCATATTATGGTACCGATACCCCC-TTCTGG
1 TAGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTTC-GG
* *
660146 TATCAATACAAATTTTAGATTCGATGTTGCT
65 TATCAATACAAATTTTAGATTCGATATTGCC
* * *
660177 TGGTATCGATACCCTTACTATCGTATCGATA
1 TAGTATCGATACCCTTACCATGGTATCGATA
660208 TTATCTCATC
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
94 4 0.04
95 101 0.95
96 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (95 bp):
TAGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTTCGGT
ATCAATACAAATTTTAGATTCGATATTGCC
Found at i:660245 original size:21 final size:20
Alignment explanation
Indices: 660199--660248 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
660189 CCTTACTATC
*
660199 GTATCGATATTATCTCATCG
1 GTATCGATATTATCTCATCA
660219 GTATCGATATTGAT-TCAATCA
1 GTATCGATATT-ATCTC-ATCA
660240 GTATCGATA
1 GTATCGATA
660249 CTACTCAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATATTATCTCATCA
Found at i:661086 original size:20 final size:21
Alignment explanation
Indices: 661048--661087 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
661038 CCATCACTAT
* *
661048 AAAATACCTTGTTTTGCCACG
1 AAAATACCTTGTCTAGCCACG
661069 AAAATA-CTTGTCTAGCCAC
1 AAAATACCTTGTCTAGCCAC
661088 CCAAAATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAATACCTTGTCTAGCCACG
Found at i:675074 original size:29 final size:29
Alignment explanation
Indices: 675032--675129 Score: 133
Period size: 29 Copynumber: 3.4 Consensus size: 29
675022 AACCCATAGG
* ** *
675032 TCGCCATGCACTCCCAGCGACCTCCTAGA
1 TCGCCATGCACTCCGAGCGACCAACGAGA
*
675061 TCGCCATGCACTCCGAGCGACCAAGGAGA
1 TCGCCATGCACTCCGAGCGACCAACGAGA
* *
675090 TCGCCATGCACTCCGAGCGACCAAGGAGG
1 TCGCCATGCACTCCGAGCGACCAACGAGA
675119 TCGCCATGCAC
1 TCGCCATGCAC
675130 GCCCGGCGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.23, C:0.39, G:0.24, T:0.13
Consensus pattern (29 bp):
TCGCCATGCACTCCGAGCGACCAACGAGA
Found at i:675138 original size:29 final size:29
Alignment explanation
Indices: 675032--675143 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
675022 AACCCATAGG
****
675032 TCGCCATGCACTCCC-AGCGACCTCCTAGA
1 TCGCCATGCAC-CCCGAGCGACCAAGGAGA
*
675061 TCGCCATGCACTCCGAGCGACCAAGGAGA
1 TCGCCATGCACCCCGAGCGACCAAGGAGA
* *
675090 TCGCCATGCACTCCGAGCGACCAAGGAGG
1 TCGCCATGCACCCCGAGCGACCAAGGAGA
*
675119 TCGCCATGCACGCCCG-GCGATCAAG
1 TCGCCATGCAC-CCCGAGCGACCAAG
675144 CTTTTAACCC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 2 0.03
29 68 0.93
30 3 0.04
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.12
Consensus pattern (29 bp):
TCGCCATGCACCCCGAGCGACCAAGGAGA
Found at i:677289 original size:31 final size:30
Alignment explanation
Indices: 677215--677341 Score: 166
Period size: 31 Copynumber: 4.2 Consensus size: 30
677205 TAGTTACGTC
677215 GGGGACCATATTGCAAACGGACTAAATGTT
1 GGGGACCATATTGCAAACGGACTAAATGTT
** *
677245 GGGGGTCATATTGCAAACAGACTAAATGTT
1 GGGGACCATATTGCAAACGGACTAAATGTT
* *
677275 GAGAGACCATATTGCAAACGGATTAAATGTT
1 G-GGGACCATATTGCAAACGGACTAAATGTT
*
677306 GGGGGACCATATTGCAAACGAACT-AATGTTT
1 -GGGGACCATATTGCAAACGGACTAAATG-TT
677337 GGGGA
1 GGGGA
677342 TTGTATTGCA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
30 37 0.45
31 45 0.54
32 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (30 bp):
GGGGACCATATTGCAAACGGACTAAATGTT
Found at i:679357 original size:31 final size:31
Alignment explanation
Indices: 679322--679384 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
679312 ATACAGTTCT
679322 CCAACATTTAGTCTATTTGCAATATGATCCC
1 CCAACATTTAGTCTATTTGCAATATGATCCC
* *
679353 CCAACATTTAGTCTGTTTGCAATATGGTCCC
1 CCAACATTTAGTCTATTTGCAATATGATCCC
679384 C
1 C
679385 GACGTAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (31 bp):
CCAACATTTAGTCTATTTGCAATATGATCCC
Found at i:684257 original size:15 final size:15
Alignment explanation
Indices: 684215--684320 Score: 55
Period size: 14 Copynumber: 7.4 Consensus size: 15
684205 ATAGTTATTA
684215 TATTTATATT-AATAT
1 TATTT-TATTAAATAT
* *
684230 AATTATA-TAAATAT
1 TATTTTATTAAATAT
*
684244 TATTTTATTAAATAA
1 TATTTTATTAAATAT
* *
684259 TATTATA-TAATTAT
1 TATTTTATTAAATAT
*
684273 TATTCT-TTAAAT-T
1 TATTTTATTAAATAT
* *
684286 TA-TTAATTAATTAT
1 TATTTTATTAAATAT
* *
684300 T-TTTGTGTTAATTAT
1 TATTT-TATTAAATAT
684315 TATTTT
1 TATTTT
684321 TGTCTACAGT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
12 1 0.01
13 9 0.13
14 30 0.44
15 25 0.37
16 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (15 bp):
TATTTTATTAAATAT
Found at i:684257 original size:29 final size:29
Alignment explanation
Indices: 684215--684284 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
684205 ATAGTTATTA
684215 TATTTATATT-AAT-ATAATTATATAAATAT
1 TATTT-TATTAAATAAT-ATTATATAAATAT
*
684244 TATTTTATTAAATAATATTATATAATTAT
1 TATTTTATTAAATAATATTATATAAATAT
*
684273 TATTCT-TTAAAT
1 TATTTTATTAAAT
684285 TTATTAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 10 0.27
29 25 0.68
30 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
TATTTTATTAAATAATATTATATAAATAT
Found at i:684289 original size:27 final size:29
Alignment explanation
Indices: 684231--684300 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
684221 TATTAATATA
* *
684231 ATTATATAAATATTATTTTATTAAATAAT
1 ATTATATAATTATTATTCTATTAAATAAT
*
684260 ATTATATAATTATTATTCT-TTAAAT-TT
1 ATTATATAATTATTATTCTATTAAATAAT
684287 ATTA-ATTAATTATT
1 ATTATA-TAATTATT
684301 TTTGTGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 13 0.35
28 6 0.16
29 17 0.46
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (29 bp):
ATTATATAATTATTATTCTATTAAATAAT
Found at i:684318 original size:18 final size:19
Alignment explanation
Indices: 684288--684323 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
684278 TTTAAATTTA
684288 TTAATTAATTATTTTTGTG
1 TTAATTAATTATTTTTGTG
684307 TTAATT-ATTATTTTTGT
1 TTAATTAATTATTTTTGT
684324 CTACAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TTAATTAATTATTTTTGTG
Found at i:686051 original size:21 final size:21
Alignment explanation
Indices: 686034--686076 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
686024 TTCATATGTT
686034 ATCTCCTCAGG-GATATATGCC
1 ATCTCCTCAGGAG-TATATGCC
686055 ATCTCCTCAGGAGTATATGCC
1 ATCTCCTCAGGAGTATATGCC
686076 A
1 A
686077 AGCCCACCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (21 bp):
ATCTCCTCAGGAGTATATGCC
Found at i:686152 original size:21 final size:21
Alignment explanation
Indices: 686101--686152 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
686091 TATGTCATCT
*
686101 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
686122 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
686143 CCGCAGGGTT
1 CCGCAGGGTT
686153 TTATACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.17, C:0.35, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:686701 original size:34 final size:34
Alignment explanation
Indices: 686661--686742 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
686651 TTAAATGTTT
*
686661 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
1 TTAAAATACAAATAATAGTATTCAAAATTTAAAA
* * *
686695 TTAAAATACAAATAATATTATTCCAAATTTAAAT
1 TTAAAATACAAATAATAGTATTCAAAATTTAAAA
*
686729 TTAAAATATAAATA
1 TTAAAATACAAATA
686743 TATTCGAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATAATAGTATTCAAAATTTAAAA
Found at i:687527 original size:127 final size:127
Alignment explanation
Indices: 687194--687698 Score: 854
Period size: 127 Copynumber: 4.0 Consensus size: 127
687184 GCGCTTTAAA
*
687194 GTCCCCTAAGGAATAATAGGTATCGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* *
687259 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAGGAACG--CTTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
* *
687319 GTCCCCTACGGAATAATAGGTATTGGCATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
*
687384 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAATGCACCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
* *
687446 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGATCCCGGGTGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* * *
687511 TAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCCGAGAACGCACCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
*
687573 ATCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* * *
687638 CAATAATAACATATTCTCTGACAAAATAATGGAAGGCGC-CCCCCGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
687699 TGAATAGTAC
Statistics
Matches: 356, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
125 112 0.31
126 20 0.06
127 224 0.63
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (127 bp):
GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
Found at i:687679 original size:252 final size:253
Alignment explanation
Indices: 687194--687698 Score: 838
Period size: 252 Copynumber: 2.0 Consensus size: 253
687184 GCGCTTTAAA
*
687194 GTCCCCTAAGGAATAATAGGTATCGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATCGACATGAATAGATCCCGGGGGACATAAGTGACATAATAGGG
* * * *
687259 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCTTTCACGGTCCC
66 TAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCCAGGAACGCCTTCACGATCCC
* * * *
687324 CTACGGAATAATAGGTATTGGCATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGTAATG
131 CTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGCAATA
*
687389 ATAACATATTCTCTGACAAAATAATGGAAGGCGCG-CCCCCGGGAATGCACCTTCACG
196 ATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCCGGGAACGCACCTTCACG
* *
687446 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGATCCCGGGTGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATCGACATGAATAGATCCCGGGGGACATAAGTGACATAATAGGG
687511 TAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCC-GAGAACGCACCTTCACGAT
66 TAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCCAG-GAACG--CCTTCACGAT
687575 CCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGCA
128 CCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGCA
*
687640 ATAATAACATATTCTCTGACAAAATAATGGAA-G-GCGCCCCCCGGGAACGCGCCTTCACG
193 ATAATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCCGGGAACGCACCTTCACG
687699 TGAATAGTAC
Statistics
Matches: 236, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
251 1 0.00
252 113 0.48
253 21 0.09
254 101 0.43
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (253 bp):
GTCCCCTAAGGAATAATAGGTATCGACATGAATAGATCCCGGGGGACATAAGTGACATAATAGGG
TAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCCAGGAACGCCTTCACGATCCC
CTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGCAATA
ATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCCGGGAACGCACCTTCACG
Found at i:694338 original size:21 final size:20
Alignment explanation
Indices: 694312--694409 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
694302 ATCAGTTTCC
694312 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
694333 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
694352 ACAAATTCGCATTGCGATTTTA
1 A-AAA-TCGCAACGCGATTTTG
* *
694374 AAGAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGATTTTG
694395 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
694410 ACACATAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.27
21 41 0.66
22 3 0.05
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:694438 original size:20 final size:20
Alignment explanation
Indices: 694377--694605 Score: 203
Period size: 20 Copynumber: 11.4 Consensus size: 20
694367 GATTTTAAAG
* ** *
694377 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
694397 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
694417 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * * *
694437 AACCGTAACGTGTATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
694457 AATAGCAACGCGTATCCGCA
1 AATCGCAACGCGTATCCGTA
*
694477 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
694497 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
694517 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
694537 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
694557 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
694577 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
694597 AATCACAAC
1 AATCGCAAC
694606 ACTGAAATTT
Statistics
Matches: 169, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
19 2 0.01
20 165 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:695337 original size:24 final size:24
Alignment explanation
Indices: 695298--695344 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
695288 AAATTTGGTC
695298 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
695322 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
695345 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:695536 original size:12 final size:12
Alignment explanation
Indices: 695519--695543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
695509 ATATAATCCT
695519 GAAGAAGAAAAA
1 GAAGAAGAAAAA
695531 GAAGAAGAAAAA
1 GAAGAAGAAAAA
695543 G
1 G
695544 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:697875 original size:33 final size:34
Alignment explanation
Indices: 697838--698098 Score: 246
Period size: 33 Copynumber: 7.4 Consensus size: 34
697828 TCAACGAGAG
*
697838 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
697871 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCGCAA--C--AATGAA
* *
697910 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
697943 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
* * * *
697981 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCGCAACAATGAA
* *
698014 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
698047 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCGCAA--C--AATGAA
*
698086 AATCGCATTGCGA
1 AATCGCAATGCGA
698099 TTATCTCGTT
Statistics
Matches: 188, Mismatches: 18, Indels: 39
0.77 0.07 0.16
Matches are distributed among these distances:
31 1 0.01
32 6 0.03
33 73 0.39
34 33 0.18
35 1 0.01
36 3 0.02
37 1 0.01
38 35 0.19
39 34 0.18
40 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACAATGAA
Found at i:697907 original size:19 final size:19
Alignment explanation
Indices: 697838--698098 Score: 319
Period size: 19 Copynumber: 14.7 Consensus size: 19
697828 TCAACGAGAG
697838 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
697857 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
697871 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
697891 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
697910 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
697929 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
697943 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
697962 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
697981 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
697995 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
698014 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
698033 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
698047 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
698067 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
698086 AATCGCATTGCGA
1 AATCGCAATGCGA
698099 TTATCTCGTT
Statistics
Matches: 211, Mismatches: 9, Indels: 44
0.80 0.03 0.17
Matches are distributed among these distances:
14 42 0.20
15 3 0.01
16 6 0.03
17 8 0.04
18 2 0.01
19 121 0.57
20 29 0.14
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:697965 original size:52 final size:52
Alignment explanation
Indices: 697824--698092 Score: 413
Period size: 52 Copynumber: 5.1 Consensus size: 52
697814 CGGAAATTAC
* *
697824 AATCTCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
697871 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
697929 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
697981 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
698033 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
698086 AATCGCA
1 AATCGCA
698093 TTGCGATTAT
Statistics
Matches: 206, Mismatches: 4, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
47 7 0.03
49 1 0.00
50 1 0.00
52 118 0.57
53 63 0.31
55 2 0.01
56 1 0.00
58 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:698160 original size:54 final size:52
Alignment explanation
Indices: 698088--698205 Score: 209
Period size: 54 Copynumber: 2.2 Consensus size: 52
698078 GAAATGAAAA
698088 TCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
*
698141 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
698194 TCGCATTGCGAT
1 TCGCATTGCGAT
698206 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
52 11 0.17
53 20 0.32
54 32 0.51
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:698213 original size:19 final size:19
Alignment explanation
Indices: 698107--698205 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
698097 GATTATCTCG
698107 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
698127 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
698147 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
698161 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
698180 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
698199 TTGCGAT
1 TTGCGAT
698206 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 5 0.07
17 6 0.08
18 3 0.04
19 26 0.36
20 26 0.36
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:698331 original size:14 final size:14
Alignment explanation
Indices: 698312--698348 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
698302 CATCAATTAC
698312 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
698326 ACAAATCATCTTTT
1 ACAAATCAACTTTT
698340 ACAAATCAA
1 ACAAATCAA
698349 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:700308 original size:19 final size:19
Alignment explanation
Indices: 700266--700437 Score: 141
Period size: 19 Copynumber: 9.6 Consensus size: 19
700256 TAGTTTACTT
* *
700266 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
700286 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
700305 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
* **
700324 TCGCAACGTGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
700343 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
700362 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
700376 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
700395 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
700409 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
700427 TCGCAATGCGA
1 TCGCAACGCGA
700438 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 16, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.06
17 7 0.06
18 13 0.10
19 68 0.54
20 12 0.10
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:700379 original size:14 final size:14
Alignment explanation
Indices: 700360--700416 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
700350 GCGAAATGAA
*
700360 AATCGCAACGACAG
1 AATCGCAACGAAAG
700374 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
700391 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
700407 AATCGCAACG
1 AATCGCAACG
700417 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:700387 original size:33 final size:33
Alignment explanation
Indices: 700341--700432 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
700331 GTGAAACCAA
700341 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
700374 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
700407 AATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
700433 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 9 0.16
33 47 0.84
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:700455 original size:19 final size:18
Alignment explanation
Indices: 700433--700524 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
700423 GAAATCGCAA
700433 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
700452 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
700466 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
700485 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
700499 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
700518 TGCGATT
1 TGCGATT
700525 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:700468 original size:14 final size:14
Alignment explanation
Indices: 700449--700507 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
700439 TTTGGTTTCG
700449 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
700463 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
700480 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
700496 CGTTGCGATTTT
1 CGTTGCGATTTT
700508 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:700475 original size:33 final size:33
Alignment explanation
Indices: 700433--700556 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
700423 GAAATCGCAA
*
700433 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
700466 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
700499 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
700532 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
700557 AAGTAACTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:700534 original size:14 final size:14
Alignment explanation
Indices: 700482--700538 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
700472 TTTGGTTTCG
*
700482 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
700496 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
700515 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
700529 CGTTGCGATT
1 CGTTGCGATT
700539 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:700812 original size:93 final size:93
Alignment explanation
Indices: 700653--700968 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
700643 TCAGGGTATT
700653 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
700718 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
700746 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
700811 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
700839 AGTTTAGCATAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
700904 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
700932 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
700969 AAGCAATCTA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 220 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:702681 original size:20 final size:20
Alignment explanation
Indices: 702650--702713 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
702640 CTTTGGTTGA
702650 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
702670 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
702690 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
702711 AAT
1 AAT
702714 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:702702 original size:21 final size:21
Alignment explanation
Indices: 702648--702712 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
702638 GTCTTTGGTT
702648 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
702669 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
702689 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
702710 GAA
1 GAA
702713 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:702760 original size:19 final size:19
Alignment explanation
Indices: 702738--702845 Score: 73
Period size: 19 Copynumber: 5.7 Consensus size: 19
702728 AAAATCGCAA
** *
702738 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTCATTTCGCGT
702757 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
702776 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
702790 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
** *
702811 TGCAGATAGTCATTTTCACGT
1 TGC-GATTTTCA-TTTCGCGT
702832 TGCGATTTTCATTT
1 TGCGATTTTCATTT
702846 ATCTCGTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
14 10 0.14
16 3 0.04
17 3 0.04
19 24 0.33
20 6 0.08
21 17 0.24
22 9 0.12
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.48
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:702807 original size:21 final size:21
Alignment explanation
Indices: 702781--702857 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
702771 CGCGTTGCGA
702781 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
702802 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
702824 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
702844 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
702858 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:702979 original size:33 final size:33
Alignment explanation
Indices: 702937--703007 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
702927 AATACTAACT
702937 TGAAAATCGCAACGAGAGAATAGCAACGCAAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCAAAA
* * *
702970 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCAAAA
703003 TGAAA
1 TGAAA
703008 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCAAAA
Found at i:703412 original size:20 final size:20
Alignment explanation
Indices: 703387--703541 Score: 240
Period size: 20 Copynumber: 7.7 Consensus size: 20
703377 CTTTAAAAAT
703387 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
703407 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
703427 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
703448 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
703468 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
703488 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
703508 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
703528 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
703542 TGTGTTTGCG
Statistics
Matches: 122, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
20 105 0.86
21 17 0.14
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:703579 original size:60 final size:60
Alignment explanation
Indices: 703387--703560 Score: 244
Period size: 60 Copynumber: 2.9 Consensus size: 60
703377 CTTTAAAAAT
*
703387 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGT-ATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTGTTTG-CGTTGCGATTTACGGATA
* * **
703448 CGCGTTGCGATATACGGATACGCATTGCGATTTACG-GATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTG-TTTGCGTTGCGATTTACGGATA
* *
703508 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTTGCGTTGCGATTT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTGTTTGCGTTGCGATTT
703561 TCATATTTGC
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
60 69 0.70
61 30 0.30
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.34
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTACGTGTTTGCGTTGCGATTTACGGATA
Found at i:709340 original size:65 final size:65
Alignment explanation
Indices: 709269--709390 Score: 244
Period size: 65 Copynumber: 1.9 Consensus size: 65
709259 CGGATAAATT
709269 TATATTTCCTCCTCTAAAAACTCACTTGGAAGGAAAAATCATAATATTTTTCATCAATGTCTATA
1 TATATTTCCTCCTCTAAAAACTCACTTGGAAGGAAAAATCATAATATTTTTCATCAATGTCTATA
709334 TATATTTCCTCCTCTAAAAACTCACTTGGAAGGAAAAATCATAATATTTTTCATCAA
1 TATATTTCCTCCTCTAAAAACTCACTTGGAAGGAAAAATCATAATATTTTTCATCAA
709391 CTGTGCAGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (65 bp):
TATATTTCCTCCTCTAAAAACTCACTTGGAAGGAAAAATCATAATATTTTTCATCAATGTCTATA
Found at i:710545 original size:2 final size:2
Alignment explanation
Indices: 710538--710647 Score: 92
Period size: 2 Copynumber: 59.0 Consensus size: 2
710528 TCGGGTCAGG
* * * *
710538 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- 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
* * * *
710578 TA TA TA TA TA TA T- TA -A TT TA AA T- TA AA TT TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
710615 T- 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
710648 AAATAATTAT
Statistics
Matches: 84, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
1 8 0.10
2 76 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:710658 original size:48 final size:49
Alignment explanation
Indices: 710538--710658 Score: 176
Period size: 48 Copynumber: 2.5 Consensus size: 49
710528 TCGGGTCAGG
*
710538 TATATATATTTAAATTAAATATATAAATATTATATATATATATATATATA
1 TATATATATTTAAATTAAAT-TATTAATATTATATATATATATATATATA
710588 TAT-TA-ATTTAAATTAAATTTATTAATATTATATATATATATATATATA
1 TATATATATTTAAATTAAA-TTATTAATATTATATATATATATATATATA
* *
710636 TATATATATATAAAAT-AATTATT
1 TATATATATTTAAATTAAATTATT
710659 TTTAATATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
48 48 0.74
49 7 0.11
50 10 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (49 bp):
TATATATATTTAAATTAAATTATTAATATTATATATATATATATATATA
Found at i:712946 original size:3 final size:3
Alignment explanation
Indices: 712938--713000 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
712928 CTTCCTAAAC
712938 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
712986 TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA T
713001 CAATTATCTT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:715600 original size:37 final size:38
Alignment explanation
Indices: 715521--715602 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
715511 TTCACCCTAA
* *
715521 ACCCGAACCCGACCCGAATGTCACACTTAAAAAAACCTG
1 ACCCG-ACCCGACCCGAATATCACACTTAAAAAAACCCG
*
715560 ACCCGACTCGACCCGAATATCACACTT-AAAAAACCCG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCG
715597 ACCCGA
1 ACCCGA
715603 ACAAAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 15 0.38
38 20 0.50
39 5 0.12
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (38 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAAACCCG
Found at i:715854 original size:190 final size:191
Alignment explanation
Indices: 715623--715975 Score: 582
Period size: 190 Copynumber: 1.8 Consensus size: 191
715613 GTTTCATCCA
*
715623 ACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATTATTT
1 ACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCCAAAATAATAAAAAATTATTT
* *
715688 TTATTTAATAAAAATAGTGACTTAATCCGACCAGACCCGAATTATATATATTTTCGGGTCGGTCC
66 TTATTTAATAAAAACAGTGACTTAATCCGACCAGACCCGAATTATATATATTTTCAGGTCGGTCC
715753 AG-TTTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACAGTTAAAAAAACCCG
131 AGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACAGTTAAAAAAACCCG
* * * *
715813 ACCCGACCTGAATATATGAATTAGAAATCCTACCTGACCCGACCCAAAATAATAAAGAATTATTT
1 ACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCCAAAATAATAAAAAATTATTT
* * *
715878 TTATTTAATAAAAACAGTGACTTAATCTGACCCGACCCGCATTATATATATTTTCAGGTCGGTCC
66 TTATTTAATAAAAACAGTGACTTAATCCGACCAGACCCGAATTATATATATTTTCAGGTCGGTCC
* *
715943 GGTTTTTTTTCACCCTAAACCCGAATCCGACCC
131 AG-TTTTTTTCACCCTAAACCCGAACCCGACCC
715976 CGATCCGACC
Statistics
Matches: 149, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
190 121 0.81
192 28 0.19
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.27
Consensus pattern (191 bp):
ACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCCAAAATAATAAAAAATTATTT
TTATTTAATAAAAACAGTGACTTAATCCGACCAGACCCGAATTATATATATTTTCAGGTCGGTCC
AGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACAGTTAAAAAAACCCG
Found at i:716375 original size:211 final size:213
Alignment explanation
Indices: 716009--716783 Score: 799
Period size: 211 Copynumber: 3.6 Consensus size: 213
715999 TAAAAAAATC
* * **
716009 CAACCCGACTCGACCAGAATATCACACTT-AAAAAACCCGA--C-A--CGAATAAAATAAAGTTT
1 CAACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAATAAAGTTT
*
716068 ----C-ATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCTGAAATAATA
66 CACCCGACCCGACCCGACCCGAATATATGAATTAGAAAT----CCCGA--C--CC-GAAATAATA
* * * * ** *
716128 AAAAATTATTTTTATTTAATAAAAACATTAACTTAATCAGACATGACCTGGATTATATATATTTT
122 AAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTT
716193 CGGGTCGGTCCGATTTTTTTCACCCT-A
187 CGGGTCGGTCCG-TTTTTTTCACCCTAA
716220 -AACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAATAAAGTTT
1 CAACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAATAAAGTTT
716284 CACCCGACCCGACCCGACCCGAATATATGAATTAGAAAT-CCGACCCGAAATAATAAAAAAATAT
66 CACCCGACCCGACCCGACCCGAATATATGAATTAGAAATCCCGACCCGAAATAATAAAAAAATAT
* * *
716348 TTTTATTTAATAAAAACAGTGACTTAATCCGCCCCGCCCTGAATTATATATATTTTTGGGTCGGT
131 TTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCGGT
716413 CCGGTTTTTTTCACCCTAAA
196 CC-GTTTTTTTCACCCT-AA
* * * **
716433 CCCGAACCCGACCCGATCCGACCCGAATATCACACTTAAAAAAACCCAACCCGACTCGACCCGAA
1 --C-AACCCGA--C---CCGACCCGAATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAA
** ****
716498 T--A---TCACACTTAAAAAACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGACCC
58 TAAAGTTTCAC-CCGACCCGACCCGACCCGAATATATGAATTAGAAAT---------CCCGACCC
716558 GAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTAT
113 GAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTAT
* *
716623 ATATATTTTCGGGTCGGTTCGGTTTTTTCACCCTAAA
178 ATATATTTTCGGGTCGGTCCGTTTTTTTCACCCT-AA
*
716660 CCCGAACCCGACCCGACCCGAATATCACTCTTAAAAAAACCCGATCCGACCCGACCAAAATAAAG
1 --C-AACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAATAAAG
*
716725 TTTCACCCGACCC-A----ACCCGAATATATGAATTAGAAA-CCCGAACCGAAATAATAAAAAAA
63 TTTCACCCGACCCGACCCGACCCGAATATATGAATTAGAAATCCCGACCCGAAATAATAAAAAAA
716784 AATTATTCAA
Statistics
Matches: 482, Mismatches: 43, Indels: 78
0.80 0.07 0.13
Matches are distributed among these distances:
210 26 0.05
211 121 0.25
212 3 0.01
213 2 0.00
214 2 0.00
216 19 0.04
217 11 0.02
218 30 0.06
219 1 0.00
220 2 0.00
221 54 0.11
222 87 0.18
224 1 0.00
225 2 0.00
226 2 0.00
227 31 0.06
228 88 0.18
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (213 bp):
CAACCCGACCCGACCCGAATATCACACTTAAAAAAACCCGATCCGACCCGACCAAAATAAAGTTT
CACCCGACCCGACCCGACCCGAATATATGAATTAGAAATCCCGACCCGAAATAATAAAAAAATAT
TTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCGGT
CCGTTTTTTTCACCCTAA
Found at i:716522 original size:37 final size:38
Alignment explanation
Indices: 716437--716523 Score: 142
Period size: 38 Copynumber: 2.3 Consensus size: 38
716427 CCTAAACCCG
716437 AACCCGACCCGATCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGATCCGACCCGAATATCACACTTAAAAA
*
716475 AACCCAACCCGA-CTCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGATC-CGACCCGAATATCACACTTAAAAA
716512 AACCCGACCCGA
1 AACCCGACCCGA
716524 ATATATGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 16 0.35
38 30 0.65
ACGTcount: A:0.39, C:0.39, G:0.10, T:0.11
Consensus pattern (38 bp):
AACCCGACCCGATCCGACCCGAATATCACACTTAAAAA
Found at i:717793 original size:31 final size:25
Alignment explanation
Indices: 717723--717778 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
717713 TAGAAATGTT
717723 AAAA-AATA-TAATTATAATGACGA
1 AAAATAATATTAATTATAATGACGA
*
717746 AAAATAATATTTATTATAATGACGA
1 AAAATAATATTAATTATAATGACGA
717771 AAAATAAT
1 AAAATAAT
717779 GGCACCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 22 0.73
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (25 bp):
AAAATAATATTAATTATAATGACGA
Found at i:719930 original size:18 final size:19
Alignment explanation
Indices: 719909--719949 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
719899 AAATTTCAAA
* *
719909 AAAAATTAAA-TAAATACT
1 AAAAATTAAACAAAATAAT
719927 -AAAATTAAACAAAATAAT
1 AAAAATTAAACAAAATAAT
719945 AAAAA
1 AAAAA
719950 ATACAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.47
18 6 0.32
19 4 0.21
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAACAAAATAAT
Found at i:719973 original size:26 final size:25
Alignment explanation
Indices: 719910--719981 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 25
719900 AATTTCAAAA
*
719910 AAAATTAAATAAATACTAAAATTAAAC
1 AAAATTAAA-AAATAC-AAAAATAAAC
*
719937 AAAATAATAAAAAATACAAATAATAAAG
1 AAAAT--TAAAAAATACAAA-AATAAAC
*
719965 AAAATTAAAATATACAA
1 AAAATTAAAAAATACAA
719982 TGATAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 11 0.28
27 8 0.21
28 16 0.41
29 4 0.10
ACGTcount: A:0.71, C:0.06, G:0.01, T:0.22
Consensus pattern (25 bp):
AAAATTAAAAAATACAAAAATAAAC
Found at i:720768 original size:4 final size:4
Alignment explanation
Indices: 720761--720801 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
720751 TTGAACAAAC
720761 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
720802 TTATTGCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:721463 original size:91 final size:88
Alignment explanation
Indices: 721308--721608 Score: 336
Period size: 91 Copynumber: 3.3 Consensus size: 88
721298 GAAGGAATCG
* *
721308 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTT-TTCCTCGTCGGATGAGTTCTTCTCAT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTTCTCCCTCGT-TGATGAGTTCTTCTCAT
* *
721372 TATGAACTCTACACTGGAAATGTTGGT
64 TATGAACTCT-CA-TGGAAATATTGAT
* * * *
721399 CCAAGGTCGAACAAGTTCTTCTTATTATGAACTTTTTCTCCCTCGTATGACGAGTTCGTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGT-TGATGAGTTCTTCTCATT
*
721464 ATGAACTCTCTATTGAGAATATTGAAT
65 ATGAACTCTC-ATGGA-AATATTG-AT
* * * *
721491 -CAAGGTTGAACAAGCTCTTCTAATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTT-GATGAGTTCTTCTCATT
* * *
721555 ATGGACTCTTCATTGGAGACATTGAT
65 ATGAACTC-TCA-TGGAAATATTGAT
*
721581 CAAAGGTTGAACAAGTTCTTCTCATTAT
1 CCAAGGTTGAACAAGTTCTTCTCATTAT
721609 TTCTTCTCAT
Statistics
Matches: 178, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
90 10 0.06
91 162 0.91
92 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (88 bp):
CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCGTTGATGAGTTCTTCTCATTA
TGAACTCTCATGGAAATATTGAT
Found at i:721614 original size:13 final size:13
Alignment explanation
Indices: 721596--721621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
721586 GTTGAACAAG
721596 TTCTTCTCATTAT
1 TTCTTCTCATTAT
721609 TTCTTCTCATTAT
1 TTCTTCTCATTAT
721622 GAACTTCTTC
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:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTCTCATTAT
Found at i:721628 original size:104 final size:103
Alignment explanation
Indices: 721506--721712 Score: 292
Period size: 104 Copynumber: 2.0 Consensus size: 103
721496 TTGAACAAGC
* * * * *
721506 TCTTCTAATTATGAACTTCTTCTCCCTT-GTTGGATGAGTTCTTCTCATTATGGACTCTTCATTG
1 TCTTCTAATTATGAACTTCTTCT-CCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
*
721570 GAGACAT-TGATCAAAGGTTGAACAAGTTCTTCTCATTATT
65 GA-A-ATCTGAGCAAAGGTTGAACAAGTTCTTCTCATTATT
*
721610 TCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGG
1 TCTTCTAATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGG
*
721675 AAATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTAT
66 AAAT-CTGAGCAAAGGTTGAACAAGTTCTTCTCATTAT
721713 GAAATTCTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
102 2 0.02
103 5 0.05
104 85 0.92
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (103 bp):
TCTTCTAATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATGG
AAATCTGAGCAAAGGTTGAACAAGTTCTTCTCATTATT
Found at i:721746 original size:195 final size:195
Alignment explanation
Indices: 721414--721803 Score: 480
Period size: 195 Copynumber: 2.0 Consensus size: 195
721404 GTCGAACAAG
* * * * * *
721414 TTCTTCTTATTATGAACTTTTTCTCCCTCGTATGACGAGTTCGTCTCATTATGAACTCTCTATTG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCATAGGACGAGTTCGTCTCATTATGAACTCTCCAATG
* * ** *
721479 AGAATATTGAATCAAGGTTGAACAAGCTCTTCTAATTATGAACTTCTTCTCCCTTGTTGGATGAG
66 AGAATATTGAACCAAGGTTGAACAAGCTCTTCTAATTATGAAATTCTTCTCCCTCATTGGACGAG
* * * * *
721544 TTCTTCTCATTATGGACTCT-TCATTGGAGACATTGATCAAAGGTTGAACAAGTTCTTCTCATTA
131 TTCTTCTCATTATGAACTCTCT-ACTGGAAACATTGAGCAAAGGTTGAACAAATTCTTCTCATTA
721608 T
195 T
* * * *
721609 TTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
1 TTCTTCTCATTATGAACTTCTTCTCCCTCATAGGACGAGTTCGTCTCATTATGAACTCTCCAATG
* * * * *
721674 -GAA-ATGCTGAGCCAAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTTTCTCTCATTGGACG
66 AGAATAT--TGAACCAAGGTTGAACAAGCTCTTCTAATTATGAAATTCTTCTCCCTCATTGGACG
** *
721737 AGTTCTTCTCATTATGAACTCTCTACTGGAAATGTTGAGCCAAGGTTGAACAAATTCTTCTCATT
129 AGTTCTTCTCATTATGAACTCTCTACTGGAAACATTGAGCAAAGGTTGAACAAATTCTTCTCATT
721802 AT
194 AT
721804 GAACTTTTTC
Statistics
Matches: 164, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
193 2 0.01
194 3 0.02
195 158 0.96
196 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (195 bp):
TTCTTCTCATTATGAACTTCTTCTCCCTCATAGGACGAGTTCGTCTCATTATGAACTCTCCAATG
AGAATATTGAACCAAGGTTGAACAAGCTCTTCTAATTATGAAATTCTTCTCCCTCATTGGACGAG
TTCTTCTCATTATGAACTCTCTACTGGAAACATTGAGCAAAGGTTGAACAAATTCTTCTCATTAT
Found at i:721767 original size:91 final size:90
Alignment explanation
Indices: 721609--721848 Score: 347
Period size: 91 Copynumber: 2.6 Consensus size: 90
721599 TTCTCATTAT
* *
721609 TTCTTCTCATTATGAACTTCTTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAATG
1 TTCTTCTCATTATGAACTTCTTTTCC-TCATTGGATGAGTTCTTCTCATTATGAACTCTCCAATG
*
721674 GAAATGCTGAGCCAAGGTTGAACAAG
65 GAAATGCTGAGCCAAGGTTGAACAAA
* * * *
721700 TTCTTCTCATTATGAAATTCTTTTCTCTCATTGGACGAGTTCTTCTCATTATGAACTCTCTACTG
1 TTCTTCTCATTATGAACTTCTTTTC-CTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAATG
*
721765 GAAATGTTGAGCCAAGGTTGAACAAA
65 GAAATGCTGAGCCAAGGTTGAACAAA
**
721791 TTCTTCTCATTATGAACTT-TTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTC
1 TTCTTCTCATTATGAACTTCTTT-T-CCTCATTGGATGAGTTCTTCTCATTATGAACTC
721849 GTCGCTATAA
Statistics
Matches: 134, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
90 3 0.02
91 129 0.96
92 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (90 bp):
TTCTTCTCATTATGAACTTCTTTTCCTCATTGGATGAGTTCTTCTCATTATGAACTCTCCAATGG
AAATGCTGAGCCAAGGTTGAACAAA
Found at i:721835 original size:286 final size:286
Alignment explanation
Indices: 721323--721848 Score: 792
Period size: 286 Copynumber: 1.8 Consensus size: 286
721313 GTTGAACAAG
* * *
721323 TTCTTCTCATTATGAACTTCTTTTTCCTCGTCGGATGAGTTCTTCTCATTATGAACTCTACACTG
1 TTCTTCTCATTATGAACTTCTTTCTCCTCATCGGATGAGTTCTTCTCATTATGAACTCTACAATG
* * * *
721388 GAAATGTTGGTCCAAGGTCGAACAAGTTCTTCTTATTATGAACTTTTTCTCCCTCGTATGACGAG
66 GAAATGCTGGTCCAAGGTCGAACAAGTTCTTCTCATTATGAAATTTTTCTCCCTCATATGACGAG
* * *
721453 TTCGTCTCATTATGAACTCTCTATTGAGAATATTGAATCAAGGTTGAACAAGCTCTTCTAATTAT
131 TTCGTCTCATTATGAACTCTCTATGGAGAATATTGAACCAAGGTTGAACAAACTCTTCTAATTAT
*
721518 GAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGGACTCTTCATTGGAGACATTGATCA
196 GAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTTCATTGGAGACATTGATCA
721583 AAGGTTGAACAAGTTCTTCTCATTAT
261 AAGGTTGAACAAGTTCTTCTCATTAT
*
721609 TTCTTCTCATTATGAACTTC-TTCTCCTTCATCGGATGAGTTCTTCTCATTATGAACTCTCCAAT
1 TTCTTCTCATTATGAACTTCTTTCTCC-TCATCGGATGAGTTCTTCTCATTATGAACTCTACAAT
* *
721673 GGAAATGCTGAG-CCAAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTT-TCTCTCAT-TGGA
65 GGAAATGCTG-GTCCAAGGTCGAACAAGTTCTTCTCATTATGAAATT-TTTCTCCCTCATAT-GA
* * * * *
721735 CGAGTTCTTCTCATTATGAACTCTCTACTGGA-AATGTTGAGCCAAGGTTGAACAAATTCTTCTC
127 CGAGTTCGTCTCATTATGAACTCTCTA-TGGAGAATATTGAACCAAGGTTGAACAAACTCTTCTA
*
721799 ATTATGAACTTTTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTC
191 ATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTC
721849 GTCGCTATAA
Statistics
Matches: 215, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
285 6 0.03
286 202 0.94
287 7 0.03
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (286 bp):
TTCTTCTCATTATGAACTTCTTTCTCCTCATCGGATGAGTTCTTCTCATTATGAACTCTACAATG
GAAATGCTGGTCCAAGGTCGAACAAGTTCTTCTCATTATGAAATTTTTCTCCCTCATATGACGAG
TTCGTCTCATTATGAACTCTCTATGGAGAATATTGAACCAAGGTTGAACAAACTCTTCTAATTAT
GAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTTCATTGGAGACATTGATCA
AAGGTTGAACAAGTTCTTCTCATTAT
Found at i:734334 original size:18 final size:17
Alignment explanation
Indices: 734298--734350 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
734288 ATTTCAAAAT
* *
734298 AAATTAAATAAATACTA
1 AAATTAAAAAAATAATA
734315 AAATTAAACAAAATAATA
1 AAATTAAA-AAAATAATA
734333 AAA--AATAAAAATAATA
1 AAATTAA-AAAAATAATA
734349 AA
1 AA
734351 GAAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 13 0.41
17 9 0.28
18 10 0.31
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATTAAAAAAATAATA
Found at i:737955 original size:27 final size:27
Alignment explanation
Indices: 737878--737949 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
737868 TGTTGACGCT
*
737878 ATATTTTAATGAATGT-ATTAATATCA
1 ATATTTAAATGAATGTGATTAATATCA
* * *
737904 ATAGTTAAATTAATATGATTAATATCA
1 ATATTTAAATGAATGTGATTAATATCA
*
737931 ATATTTGAATGAATGTGAT
1 ATATTTAAATGAATGTGAT
737950 AGATATTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (27 bp):
ATATTTAAATGAATGTGATTAATATCA
Found at i:738925 original size:21 final size:21
Alignment explanation
Indices: 738888--738928 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
738878 AAATTACATA
*
738888 ATTATTAATTAATTAAATAAT
1 ATTATTAATTAACTAAATAAT
738909 ATTA-TAATTCAACTAAATAA
1 ATTATTAATT-AACTAAATAA
738929 ATAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTATTAATTAACTAAATAAT
Found at i:738931 original size:25 final size:24
Alignment explanation
Indices: 738901--738963 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
738891 ATTAATTAAT
**
738901 TAAATAATATTATAATTCAACTAAA
1 TAAATAATATTATAA-GAAACTAAA
*
738926 TAAATAAATAATATAAGAAACTAAA
1 TAAAT-AATATTATAAGAAACTAAA
*
738951 TAAATTA-ATTATA
1 TAAATAATATTATA
738964 TACCTCAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 5 0.16
24 1 0.03
25 17 0.53
26 9 0.28
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (24 bp):
TAAATAATATTATAAGAAACTAAA
Found at i:740337 original size:118 final size:112
Alignment explanation
Indices: 740053--740603 Score: 458
Period size: 118 Copynumber: 4.9 Consensus size: 112
740043 TTAATTTATA
** * *
740053 CTAAA-AATATAATTTAAACTAAACTTATGAAACTACTCAAATACAACTTAATATG-AATAATCA
1 CTAAATAATA-AATTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAA-AATCA
* *
740116 AAATAAATAGTCTAATAA-TTATAATTTAAAATAAAAACCAAAATTATA-
64 AAATAAATAGTCTAATAATTTAT-ATTTAAAATAAAAACCAAAACTAAAC
* * * * * *
740164 CTAAAAATTACACGAAAATTTAGATTAAATTTAACAAACCACTCGAATACAATTTAATATGTAAA
1 CT--AAA-TA-A--TAAATTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAA
* * *
740229 ATCAAAATAAATAGTTTAATTAATTTATATTTACAATAAAAACCTTAAACCCTAAACC
60 ATCAAAATAAATAGTCTAA-TAATTTATATTTAAAATAAAAACC--AAA-ACTAAA-C
* *
740287 CTAAATAATAAATTTTAAACTAAACTTACCAAACCACTCAAATACGATTTAATCTGTAAAAT-AA
1 CTAAATAATAAA-TTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATCAA
* * *
740351 AATTAATTAGTCTAATAATTTATA-TT--ACTCAATAA--AAAA-TAAA-
65 AA-TAAATAGTCTAATAATTTATATTTAAAAT-AAAAACCAAAACTAAAC
* *
740394 --AAAT-AT-AATTTAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTAAAATCAAA
1 CTAAATAATAAATTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATCAAA
*
740455 ATAAATAGTCTAATAA-TTATTATTTAAAATAAAAA--AATTACACTAAAAA
66 ATAAATAGTCTAATAATTTA-TATTTAAAATAAAAACCAA--A-ACT-AAAC
* * ** * * * * *
740504 TTACACGA-AAATTTAAATTAAACTTATCAAACCACACAAATACAGTTTAATCTGTAAAATCAAA
1 CTAAATAATAAATTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATCAAA
*
740568 ATAAATAATCTAATTAATTTATATTTAAAATAAAAA
66 ATAAATAGTCTAA-TAATTTATATTTAAAATAAAAA
740604 TAATAAAGTG
Statistics
Matches: 361, Mismatches: 44, Indels: 67
0.76 0.09 0.14
Matches are distributed among these distances:
101 3 0.01
102 61 0.17
103 8 0.02
104 8 0.02
105 6 0.02
106 1 0.00
107 1 0.00
108 1 0.00
109 7 0.02
111 5 0.01
112 2 0.01
113 64 0.18
114 20 0.06
115 8 0.02
116 3 0.01
117 72 0.20
118 73 0.20
119 5 0.01
120 5 0.01
121 6 0.02
123 2 0.01
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (112 bp):
CTAAATAATAAATTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATCAAA
ATAAATAGTCTAATAATTTATATTTAAAATAAAAACCAAAACTAAAC
Found at i:740602 original size:215 final size:218
Alignment explanation
Indices: 740180--740603 Score: 513
Period size: 215 Copynumber: 1.9 Consensus size: 218
740170 ATTACACGAA
* * * * * *
740180 AATTTAGATTAAATTTAACAAACCACTCGAATACAATTTAATATGTAAAATCAAAATAAATAGTT
1 AATTTAAACTAAACTTAACAAACCACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTC
* ** * ** *
740245 TAATTAATTTATATTTACAATAAAAACCTTAAACCCTAAACCCTAAATAATAAATTTTAAACTAA
66 TAATTAATTTATATTTAAAATAAAAAAATT-AACACTAAAAACTAAACAATAAATTTTAAACTAA
* * *
740310 ACTTACCAAACCACTCAAATACGATTTAATCTGTAAAATAAAATTAATTAGTCTAATAATTTATA
130 ACTTACCAAACCACACAAATACGATTTAATCTGTAAAATAAAATTAAATAATCTAATAATTTATA
*
740375 TTACTCAATAAAAAATAAAAAATAT
195 TTAC-AAATAAAAAATAAAAAATAT
* *
740400 AATTTAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTC
1 AATTTAAACTAAACTTAACAAACCACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTC
* * * *
740465 TAA-TAA-TTATTATTTAAAATAAAAAAATT-ACACTAAAAATTACACGA-AAA-TTTAAATTAA
66 TAATTAATTTA-TATTTAAAATAAAAAAATTAACACTAAAAACTAAACAATAAATTTTAAACTAA
*
740525 ACTTATCAAACCACACAAATAC-AGTTTAATCTGTAAAATCAAAA-TAAATAATCTAATTAATTT
130 ACTTACCAAACCACACAAATACGA-TTTAATCTGTAAAAT-AAAATTAAATAATCTAA-TAATTT
740588 ATATTTA-AAATAAAAA
192 ATA-TTACAAATAAAAA
740604 TAATAAAGTG
Statistics
Matches: 175, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
214 1 0.01
215 62 0.35
216 16 0.09
217 14 0.08
218 3 0.02
219 19 0.11
220 60 0.34
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (218 bp):
AATTTAAACTAAACTTAACAAACCACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTC
TAATTAATTTATATTTAAAATAAAAAAATTAACACTAAAAACTAAACAATAAATTTTAAACTAAA
CTTACCAAACCACACAAATACGATTTAATCTGTAAAATAAAATTAAATAATCTAATAATTTATAT
TACAAATAAAAAATAAAAAATAT
Found at i:746900 original size:23 final size:23
Alignment explanation
Indices: 746874--746923 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
746864 GACTTTTGGG
*
746874 TGAAATGAAATAACTATTTTTCA
1 TGAAAAGAAATAACTATTTTTCA
** *
746897 TGAAAAGACTTAATTATTTTTCA
1 TGAAAAGAAATAACTATTTTTCA
746920 TGAA
1 TGAA
746924 TAGTCATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (23 bp):
TGAAAAGAAATAACTATTTTTCA
Found at i:750907 original size:2 final size:2
Alignment explanation
Indices: 750902--750955 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
750892 ATTCACACAA
750902 AT AT AT AT AT AT 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 AT AT AT AT AT AT
750944 AT AT AT AT AT AT
1 AT AT AT AT AT AT
750956 TAAATTATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:751307 original size:2 final size:2
Alignment explanation
Indices: 751300--751367 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
751290 CTGCAATTTA
751300 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
751340 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
751368 GTGTGTGTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:751372 original size:2 final size:2
Alignment explanation
Indices: 751367--751421 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
751357 TATATATATA
751367 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
751409 T- TG TG TG TG TG TG
1 TG TG TG TG TG TG TG
751422 AAATATAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:752232 original size:209 final size:200
Alignment explanation
Indices: 751856--752262 Score: 715
Period size: 209 Copynumber: 2.0 Consensus size: 200
751846 CCATTTTGCG
*
751856 AGTTTTAGATTTTGTTTTCAAATGGGTTTTTCTTAAAGGTATGGTGATCCTAGTTGATTTAAGAG
1 AGTTTTAGATTTTGTTTTCAAATGGGTTTTTCTTAAAGGTATGGTGATCCTAGTTGATTCAAGAG
751921 GTGTTTTAGCAGCCATAAGATAACACGCTTATAGCTTTCTCATACCAAGTGTAGATCATGTATGT
66 GTGTTTTAGCAGCCATAAGATAACACGCTTATAGCTTTCTCATACCAAGTGTAGATCATGTATGT
751986 TAAGATGTGTTAGGAAGTTAAGTTTAAAGCATGTTTAGCAATTTCCATGGTAGATTGTTCATTTG
131 TAAGATGTGTTAGGAAGTTAAGTTTAAAGCATGTTTAGCAATTTCCATGGTAGATTGTTCATTTG
752051 ATGTT
196 ATGTT
752056 AGTTTTAGATTTTGTTTTCAAAATGGGTTTTTCTTAAAGGTATGGTGACTCCTAGTTGATTCAAG
1 AGTTTTAGATTTTGTTTTC-AAATGGGTTTTTCTTAAAGGTATGGTGA-TCCTAGTTGATTCAAG
*
752121 AGGTGTTTTAGCAGCCAAGGCAATAAGGTAACACGCTTATAGCTTTCTCATACCAAGTGTAGATC
64 AGGTGTTTTAGCAG-C----C-ATAAGATAACACGCTTATAGCTTTCTCATACCAAGTGTAGATC
752186 ATGTAATGTTAAGATGTGTTAGGAAGTTAAGTTTAAAGCATGTTTAGCAATTTCCATGGTAGATT
123 ATGT-ATGTTAAGATGTGTTAGGAAGTTAAGTTTAAAGCATGTTTAGCAATTTCCATGGTAGATT
752251 GTTCATTTGATG
187 GTTCATTTGATG
752263 ATATAAACAT
Statistics
Matches: 196, Mismatches: 2, Indels: 9
0.95 0.01 0.04
Matches are distributed among these distances:
200 19 0.10
201 28 0.14
202 29 0.15
203 1 0.01
207 1 0.01
208 46 0.23
209 72 0.37
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (200 bp):
AGTTTTAGATTTTGTTTTCAAATGGGTTTTTCTTAAAGGTATGGTGATCCTAGTTGATTCAAGAG
GTGTTTTAGCAGCCATAAGATAACACGCTTATAGCTTTCTCATACCAAGTGTAGATCATGTATGT
TAAGATGTGTTAGGAAGTTAAGTTTAAAGCATGTTTAGCAATTTCCATGGTAGATTGTTCATTTG
ATGTT
Found at i:753448 original size:24 final size:24
Alignment explanation
Indices: 753421--753468 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
753411 TCAGTGAAAA
*
753421 GATTTTTATTATATTTTAGTTTAT
1 GATTTTTATTATATTTCAGTTTAT
753445 GATTTTTATTATATTTCAGTTTAT
1 GATTTTTATTATATTTCAGTTTAT
753469 TTTATGGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.65
Consensus pattern (24 bp):
GATTTTTATTATATTTCAGTTTAT
Found at i:759877 original size:24 final size:23
Alignment explanation
Indices: 759849--759898 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
759839 CAACCAGCAT
**
759849 AATATTATTGGTTTCACACAGAAA
1 AATATTATCCGTTTCACACA-AAA
*
759873 AATATTATCCGTTTTACACAAAA
1 AATATTATCCGTTTCACACAAAA
759896 AAT
1 AAT
759899 GTGTCTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (23 bp):
AATATTATCCGTTTCACACAAAA
Found at i:761613 original size:37 final size:35
Alignment explanation
Indices: 761554--761667 Score: 158
Period size: 35 Copynumber: 3.2 Consensus size: 35
761544 ATCCCATTAT
* *
761554 CATTTTTCAACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAAAACATTTACCAAACTTTGAAAAA
*
761589 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 C-ATTTTTCAAA-AAACATTTACCAAACTTTGAAAAA
*
761626 CA-TTTTCAAAATAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAA-AACATTTACCAAACTTTGAAAAA
761661 CATTTTT
1 CATTTTT
761668 TCGAAGTTGG
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
34 1 0.01
35 33 0.46
36 14 0.20
37 23 0.32
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (35 bp):
CATTTTTCAAAAAACATTTACCAAACTTTGAAAAA
Found at i:765707 original size:10 final size:10
Alignment explanation
Indices: 765692--765721 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
765682 ACTATTCATG
765692 TGAATAGTAA
1 TGAATAGTAA
765702 TGAATAGTAA
1 TGAATAGTAA
765712 TGAATAGTAA
1 TGAATAGTAA
765722 CATCGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (10 bp):
TGAATAGTAA
Done.