Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 9 of 160
Found at i:2743335 original size:18 final size:18
Alignment explanation
Indices: 2743310--2743357 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2743300 TAATAATAAT
*
2743310 AACAACAACAACAGCAGC
1 AACAACAACAACAGCAAC
*
2743328 AGCAACAACAACAGCAAC
1 AACAACAACAACAGCAAC
2743346 AACAACAACAAC
1 AACAACAACAAC
2743358 GACAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.58, C:0.33, G:0.08, T:0.00
Consensus pattern (18 bp):
AACAACAACAACAGCAAC
Found at i:2743367 original size:3 final size:3
Alignment explanation
Indices: 2743361--2743451 Score: 77
Period size: 3 Copynumber: 31.3 Consensus size: 3
2743351 CAACAACGAC
* *
2743361 AAT AAT AAT AAT AAT AAT -AT AAT -AT ACT AA- ATAT AGT -AT AAGGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA--T
* *
2743405 -AT TAT ACT A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2743451 A
1 A
2743452 TTGCATAACA
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
2 9 0.12
3 61 0.84
4 2 0.03
5 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2751246 original size:3 final size:3
Alignment explanation
Indices: 2751238--2751300 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
2751228 CTGTCATACC
2751238 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2751286 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
2751301 TGGTATAAGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2752089 original size:35 final size:35
Alignment explanation
Indices: 2752048--2752117 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
2752038 TAACAATACA
2752048 ACTTATCAA-ATTTTAAAAATATAACTTATTTGGCT
1 ACTTATCAACATTTTAAAAATATAACTTA-TTGGCT
* *
2752083 ACTTATCAACTTTTTAAAAATATAATTTATTGGCT
1 ACTTATCAACATTTTAAAAATATAACTTATTGGCT
2752118 TCACCTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 15 0.47
36 17 0.53
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (35 bp):
ACTTATCAACATTTTAAAAATATAACTTATTGGCT
Found at i:2755120 original size:996 final size:995
Alignment explanation
Indices: 2753189--2755186 Score: 3446
Period size: 996 Copynumber: 2.0 Consensus size: 995
2753179 TTCACTTATG
* * *
2753189 TTAATATTTTTTTTGTTGATAATTTTATTATGGTAATTTGAGTTCAAGTTTGTGACCTCTTTTTA
1 TTAATATTTTTTTTGTCGATAATTTTATTATGCTAATTTGAGTTCAAGTTTGTGACCTCCTTTTA
*
2753254 TGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTTGTTTTTTTACTAATGTA
66 GGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTTGTTTTTTTACTAATGTA
*
2753319 CTCTTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAAT
131 CTATTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAAT
2753384 ACAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTTA
196 ACAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTTA
2753449 ATAATCCTAATATGTTTGATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCATA
261 ATAATCCTAATATGTTTGATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCATA
* * *
2753514 ACGTATAGATTAGTAGACCTACCATTAGACTTTATTTCAAAGAGTTACCACCAATATTTTTTCTT
326 ACGTATAGATCAGTAAACCTACCATTAGACTTTATTTCAAAGAGTCACCACCAATATTTTTTCTT
* * * * *
2753579 TAAGTGTGATTGATCACTTAATTGAATCTGTTTTATTTTAAAGAGATGTTCTAAGTTTGACTCAT
391 TAAATGTGATTGATCACTTAATCGAATCTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTCAG
* * *
2753644 ATATTTTTAAAAGATAGATTCATGTCTATAAAGCCAAGATTAGATCCGGGAGTTTGGTTACGTGT
456 ATATTTTTAAAAGATAAATTCATGTCTATAAAACCAAGATTAGATCCGGGAGTTTGGTTACGTAT
*
2753709 AGGGAAGGTTATAGCACCCTGTAACAACCATCCAAATGATGGTACCATTTGATCTCCTGTTATCC
521 AGGGAAGGTTATAGCACCATGTAACAACCATCCAAATGATGGTACCATTTGATCTCCTGTTATCC
*
2753774 AAAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCCAATATGT
586 AAAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATATGT
* * *
2753839 TGGTAATAATTTTAGGTCATTCCCTTACTTCAAGAGTATTCAAAGAGACTATTTGTTACGTTTTA
651 TGGTAATAATTTTAGGACATTCCCTTACTTCAAGAGTATTCAAAGAAACTATTTGTTACGTCTTA
* *
2753904 AAAAAGCTTAATCATTAGATTTATTAATATTTATAAAAACTTTTATTTATAATATGTGAGATTTT
716 AAAAAGCTTAATCATCAGATTTATTAATATTTATAAAAAATTTTATTTATAATATGTGAGATTTT
2753969 GAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAGAATT
781 GAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAGAATT
*
2754034 TTTTATTTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTAAAGA
846 TTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTAAAGA
2754099 TTCAAAATCTAATTTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAAGAT
911 TTCAAAATCTAATTTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAAGAT
*
2754164 TTTTTATCAAAAATTATCTT
976 TTTTTATCAAAAATTATCCT
*
2754184 TTAATATTTTTTTTGTCGATAATTTTGTTATGCTAATTTGAGTTCAAGTTTGTGACCTCCTTTTA
1 TTAATATTTTTTTTGTCGATAATTTTATTATGCTAATTTGAGTTCAAGTTTGTGACCTCCTTTTA
2754249 GGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTTGTTTTCTTTACTAATGT
66 GGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTTGTTTT-TTTACTAATGT
* * *
2754314 ACTATTTAAAAAATGTTTTTGATTATATGGTTAAGAAAAATTTTATAGAAATGAATGATATGGAA
130 ACTATTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAA
* **
2754379 TACAAGTTTTAGGAAACTTTTTATGGGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTT
195 TACAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTT
* *
2754444 AATAATCCTAATATGTTTGATGAATTACAACCAATTAATTCATAAATCACGTTAATAATTATTAT
260 AATAATCCTAATATGTTTGATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCAT
** *
2754509 AACGTATAGATCAGTAAACCTACTGTTAGACTTTATTTCAAAGAGTCATCACCAATA-TTTTTCA
325 AACGTATAGATCAGTAAACCTACCATTAGACTTTATTTCAAAGAGTCACCACCAATATTTTTTC-
* *
2754573 TTTAAATGTGATTGGTCACTTAATCGAATTTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTC
389 TTTAAATGTGATTGATCACTTAATCGAATCTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTC
* *
2754638 AGATATTTTTAAAAGATAAATT-ATGTCTATAAAACCAAGATTAGATTCGGGAGTTTGGTTATGT
454 AGATATTTTTAAAAGATAAATTCATGTCTATAAAACCAAGATTAGATCCGGGAGTTTGGTTACGT
2754702 ATAGGGAAGGTTATAGCACCATGTAACAACCATCCAAATGATGGTACCAATTTGATCTCCTGTTA
519 ATAGGGAAGGTTATAGCACCATGTAACAACCATCCAAATGATGGTACC-ATTTGATCTCCTGTTA
* *
2754767 TCCAAAATCGTAAAAATCTTATCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATA
583 TCCAAAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATA
**
2754832 TGTTGGTAATAATTTTAGGACATTCCCTTACTTTGAGAGTATTCAAAGAAACTATTTGTTACG-C
648 TGTTGGTAATAATTTTAGGACATTCCCTTACTTCAAGAGTATTCAAAGAAACTATTTGTTACGTC
* *
2754896 TTAAAAGATGCTTAATCATCGGATTTATTAATATTTTATAAAAAATTTTATTTATAATATGTGAG
713 TTAAAA-AAGCTTAATCATCAGATTTATTAATA-TTTATAAAAAATTTTATTTATAATATGTGAG
2754961 ATTTTGAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAA
776 ATTTTGAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAA
* *
2755026 GAGTTTTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATCATT
841 GAATTTTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATT
* * *
2755091 AAAGATTCAAAATCTAA-TTTTATAAAAATATTTTATTTTCAAAAATATTTTTCAATATGTTGGT
906 AAAGATTCAAAATCTAATTTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGT
2755155 AAGATTTTTTATCAAAAATTATCCT
971 AAGATTTTTTATCAAAAATTATCCT
*
2755180 TCAATAT
1 TTAATAT
2755187 GTTGGTAAGA
Statistics
Matches: 945, Mismatches: 53, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
995 210 0.22
996 561 0.59
997 174 0.18
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (995 bp):
TTAATATTTTTTTTGTCGATAATTTTATTATGCTAATTTGAGTTCAAGTTTGTGACCTCCTTTTA
GGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTTGTTTTTTTACTAATGTA
CTATTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAAT
ACAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTTA
ATAATCCTAATATGTTTGATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCATA
ACGTATAGATCAGTAAACCTACCATTAGACTTTATTTCAAAGAGTCACCACCAATATTTTTTCTT
TAAATGTGATTGATCACTTAATCGAATCTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTCAG
ATATTTTTAAAAGATAAATTCATGTCTATAAAACCAAGATTAGATCCGGGAGTTTGGTTACGTAT
AGGGAAGGTTATAGCACCATGTAACAACCATCCAAATGATGGTACCATTTGATCTCCTGTTATCC
AAAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATATGT
TGGTAATAATTTTAGGACATTCCCTTACTTCAAGAGTATTCAAAGAAACTATTTGTTACGTCTTA
AAAAAGCTTAATCATCAGATTTATTAATATTTATAAAAAATTTTATTTATAATATGTGAGATTTT
GAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAGAATT
TTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTAAAGA
TTCAAAATCTAATTTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAAGAT
TTTTTATCAAAAATTATCCT
Found at i:2755171 original size:37 final size:39
Alignment explanation
Indices: 2755120--2755202 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 39
2755110 TTATAAAAAT
* **
2755120 ATTTTATTTTCAAAAA-TATTTTTCAATATGTTGGTAAG
1 ATTTTATTATCAAAAATTATCCTTCAATATGTTGGTAAG
2755158 ATTTT-TTATCAAAAATTATCCTTCAATATGTTGGTAAG
1 ATTTTATTATCAAAAATTATCCTTCAATATGTTGGTAAG
2755196 ATTTTAT
1 ATTTTAT
2755203 GAAAATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
37 9 0.22
38 30 0.75
39 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (39 bp):
ATTTTATTATCAAAAATTATCCTTCAATATGTTGGTAAG
Found at i:2755392 original size:8 final size:8
Alignment explanation
Indices: 2755379--2755404 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2755369 AAGAGTTATT
2755379 TTTTAAAA
1 TTTTAAAA
2755387 TTTTAAAA
1 TTTTAAAA
2755395 TTTTAAAA
1 TTTTAAAA
2755403 TT
1 TT
2755405 AGTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:2757030 original size:7 final size:7
Alignment explanation
Indices: 2757000--2757039 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
2756990 ATCAACAAAC
2757000 AATAAA-
1 AATAAAT
2757006 AATAAAAT
1 AAT-AAAT
2757014 AATAAAAT
1 AAT-AAAT
2757022 AATAAAT
1 AATAAAT
2757029 AATAAAT
1 AATAAAT
2757036 AATA
1 AATA
2757040 TATATATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 3 0.09
7 18 0.56
8 11 0.34
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AATAAAT
Found at i:2757089 original size:23 final size:22
Alignment explanation
Indices: 2757049--2757100 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
2757039 ATATATATAC
* * *
2757049 AGATAAAAGTAGTGAAAATAGAA
1 AGATAAAAGAAATAAAAATA-AA
2757072 AGATAAAAGAAATAAAAATAAA
1 AGATAAAAGAAATAAAAATAAA
2757094 A-ATAAAA
1 AGATAAAA
2757101 TTTAAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 6 0.23
22 3 0.12
23 17 0.65
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.15
Consensus pattern (22 bp):
AGATAAAAGAAATAAAAATAAA
Found at i:2759693 original size:2 final size:2
Alignment explanation
Indices: 2759686--2759710 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2759676 TTCAAAAAGA
2759686 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2759711 ATACCCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2766445 original size:15 final size:16
Alignment explanation
Indices: 2766425--2766454 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2766415 TCTAAATATC
2766425 TAAATAC-AAATCATA
1 TAAATACAAAATCATA
2766440 TAAATACAAAATCAT
1 TAAATACAAAATCAT
2766455 TTCATAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAATACAAAATCATA
Found at i:2766858 original size:16 final size:16
Alignment explanation
Indices: 2766837--2766876 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2766827 ATAATTAAAA
*
2766837 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
2766853 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
2766869 ATTATCAT
1 ATCATCAT
2766877 TTATTTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:2774943 original size:34 final size:34
Alignment explanation
Indices: 2774902--2774974 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
2774892 CAACATGATA
2774902 TTTTTTTCTA-CTA-ATATACTCAAAATAAGATTTT
1 TTTTTTTCTACCTACATAT--TCAAAATAAGATTTT
*
2774936 TTTTTTTCTACCTACATATTCAAAATGAGATTTT
1 TTTTTTTCTACCTACATATTCAAAATAAGATTTT
2774970 TTTTT
1 TTTTT
2774975 AACAATATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 29 0.81
35 3 0.08
36 4 0.11
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.53
Consensus pattern (34 bp):
TTTTTTTCTACCTACATATTCAAAATAAGATTTT
Found at i:2775045 original size:36 final size:34
Alignment explanation
Indices: 2774977--2775045 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
2774967 TTTTTTTTAA
* * *
2774977 CAATATGCTCATTCGCCAAAAAGAAAAACAAAGT
1 CAATATGCTCATACGCAAAAAAAAAAAACAAAGT
*
2775011 CAATATGTTCATACGTCAAAAAAAAAAAATCAAAG
1 CAATATGCTCATACG-CAAAAAAAAAAAA-CAAAG
2775046 CACCAAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 13 0.45
35 11 0.38
36 5 0.17
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (34 bp):
CAATATGCTCATACGCAAAAAAAAAAAACAAAGT
Found at i:2776395 original size:23 final size:27
Alignment explanation
Indices: 2776369--2776426 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
2776359 ATATCACTTC
2776369 ATTAATATGTA-A-ATTT-TTTT-AAA
1 ATTAATATGTATATATTTATTTTAAAA
* *
2776392 ATTAATTTTTATATATTTATTTTAAAA
1 ATTAATATGTATATATTTATTTTAAAA
2776419 ATTAATAT
1 ATTAATAT
2776427 TTGCTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.32
24 1 0.04
25 4 0.14
26 4 0.14
27 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTAATATGTATATATTTATTTTAAAA
Found at i:2779236 original size:16 final size:16
Alignment explanation
Indices: 2779210--2779255 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2779200 ATTTGTGTAT
2779210 TTATATGTTTTTGTTAC
1 TTAT-TGTTTTTGTTAC
* *
2779227 TTATTGTTTTTTTTTC
1 TTATTGTTTTTGTTAC
2779243 TT-TT-TTTTTGTTA
1 TTATTGTTTTTGTTA
2779256 AATAATACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 7 0.28
15 2 0.08
16 12 0.48
17 4 0.16
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (16 bp):
TTATTGTTTTTGTTAC
Found at i:2787244 original size:33 final size:32
Alignment explanation
Indices: 2787206--2787267 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
2787196 AAAGATTTCA
2787206 TTATTTTA-TTTCATTTGAAAAGATTTTTTTGTT
1 TTATTTTATTTTC--TTGAAAAGATTTTTTTGTT
* *
2787239 TTATTTTGTTTTCTTGAAAATATTTTTTT
1 TTATTTTATTTTCTTGAAAAGATTTTTTT
2787268 ATGAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 15 0.58
33 7 0.27
34 4 0.15
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.66
Consensus pattern (32 bp):
TTATTTTATTTTCTTGAAAAGATTTTTTTGTT
Found at i:2788164 original size:3 final size:3
Alignment explanation
Indices: 2788156--2788190 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2788146 TAAAAACATA
2788156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2788191 CAACAACAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2788195 original size:3 final size:3
Alignment explanation
Indices: 2788189--2788238 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
2788179 TAATAATAAT
* * * * *
2788189 AAC AAC AAC AGC AGC AGC AAC AAC AAC AGC AAC AAC AAC AAC AAC GAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
2788237 AA
1 AA
2788239 TAATAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.58, C:0.32, G:0.10, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2788209 original size:15 final size:15
Alignment explanation
Indices: 2788189--2788231 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
2788179 TAATAATAAT
*
2788189 AACAACAACAGCAGC
1 AACAACAACAACAGC
*
2788204 AGCAACAACAACAGC
1 AACAACAACAACAGC
2788219 AACAACAACAACA
1 AACAACAACAACA
2788232 ACGACAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.58, C:0.33, G:0.09, T:0.00
Consensus pattern (15 bp):
AACAACAACAACAGC
Found at i:2788212 original size:18 final size:18
Alignment explanation
Indices: 2788189--2788233 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2788179 TAATAATAAT
* *
2788189 AACAACAACAGCAGCAGC
1 AACAACAACAGCAACAAC
2788207 AACAACAACAGCAACAAC
1 AACAACAACAGCAACAAC
2788225 AACAACAAC
1 AACAACAAC
2788234 GACAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.58, C:0.33, G:0.09, T:0.00
Consensus pattern (18 bp):
AACAACAACAGCAACAAC
Found at i:2788243 original size:3 final size:3
Alignment explanation
Indices: 2788237--2788342 Score: 107
Period size: 3 Copynumber: 36.3 Consensus size: 3
2788227 CAACAACGAC
* *
2788237 AAT AAT AAT AAT AAT AAT -AT AAT -AT ACT AA- ATAT AGT -AT AAGGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA--T
* *
2788281 -AT TAT ACT A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2788327 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
2788343 TTGCATAACA
Statistics
Matches: 88, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
2 9 0.10
3 76 0.86
4 2 0.02
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2788803 original size:114 final size:114
Alignment explanation
Indices: 2788685--2788918 Score: 261
Period size: 114 Copynumber: 2.1 Consensus size: 114
2788675 GAGGTAGTAA
* * * * *
2788685 ATTAATAACTGAGATTATGTCACAAGTCCAAAAATGATCTAACATGAGTTGAGATCGGATGATTG
1 ATTAATAACTGAGATGATGTCACAAGTCCAAAAATGATCTAACATAAGTCGAGATCAGATGACTG
* * *
2788750 AGACGATACCATGAGTTTGAAAGTGACTAAGACCGAGTCGAGATCATAG
66 AGACAATACCACGAGTTTGAAAGTGACCAAGACCGAGTCGAGATCATAG
* ** * * * * *
2788799 ATTAATGACTGAGATGATGTCATGAGTTCGAAAATGATCTGACCTAAGTCGAGATTAGATGACTG
1 ATTAATAACTGAGATGATGTCACAAGTCCAAAAATGATCTAACATAAGTCGAGATCAGATGACTG
* * ** * * *
2788864 GGATAATACTGCGAGTTTGAAGGTGACCAAGACCGAGTTGAGGTCATAG
66 AGACAATACCACGAGTTTGAAAGTGACCAAGACCGAGTCGAGATCATAG
2788913 ATTAAT
1 ATTAAT
2788919 GATCAAAATG
Statistics
Matches: 97, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (114 bp):
ATTAATAACTGAGATGATGTCACAAGTCCAAAAATGATCTAACATAAGTCGAGATCAGATGACTG
AGACAATACCACGAGTTTGAAAGTGACCAAGACCGAGTCGAGATCATAG
Found at i:2789797 original size:13 final size:14
Alignment explanation
Indices: 2789779--2789811 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2789769 TTTTTTCCTT
*
2789779 TTTTTTGTTTT-TA
1 TTTTTTATTTTATA
2789792 TTTTTTATTTTATA
1 TTTTTTATTTTATA
2789806 TTTTTT
1 TTTTTT
2789812 TGGGTTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTTATTTTATA
Found at i:2796076 original size:3 final size:3
Alignment explanation
Indices: 2796068--2796103 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2796058 CTGTCATACC
2796068 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2796104 TGGTATAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2796902 original size:34 final size:34
Alignment explanation
Indices: 2796849--2796916 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
2796839 AACAATACAC
*
2796849 ACTTATCAAATTTTAAAAATATAACTTATTTGGCT
1 ACTTATCAAACTTTAAAAATATAACTTA-TTGGCT
*
2796884 ACTTATC-AACTTTAAAAATATAATTTATTGGCT
1 ACTTATCAAACTTTAAAAATATAACTTATTGGCT
2796917 TCACCTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 6 0.19
34 18 0.58
35 7 0.23
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (34 bp):
ACTTATCAAACTTTAAAAATATAACTTATTGGCT
Found at i:2799826 original size:997 final size:994
Alignment explanation
Indices: 2797980--2799977 Score: 3469
Period size: 997 Copynumber: 2.0 Consensus size: 994
2797970 TTCACTTATG
* * * *
2797980 TTAATATTTTTTTTGTTGATAATTTTATTATGGTAATTTGAGTTCAAGTTGTGACCTCTTTTTAT
1 TTAATATTTTTTTTGTCGATAATTTTATTATGCTAATTTGAGTTCAAGTTGTGACCTCCTTTTAG
2798045 GAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTGTTTTTTTTACTAATGTAC
66 GAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTGTTTTTTTTACTAATGTAC
*
2798110 TCTTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAATA
131 TATTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAATA
2798175 CAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTTAA
196 CAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTTAA
2798240 TAATCCTAATATGTTTAATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCATAA
261 TAATCCTAATATGTTTAATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCATAA
* * * **
2798305 CGTATAGATTAGTAGACCTACCATTAGACTTTATTTCAAAGAGTTACCACCAATATTTTTTTTTT
326 CGTATAGATCAGTAAACCTACCATTAGACTTTATTTCAAAGAGTCACCACCAATATTTTTCATTT
* * * *
2798370 AAGTGTGATTGATCACTTAATTGAATCTGTTTTATTTTAAAGAGATGTTCTAAGTTTGACTCATA
391 AAGTGTGATTGATCACTTAATCGAATCTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTCAGA
* * *
2798435 TATTTTTAAAAGATAGATTCATGTCTATAAAGCCAAGATTAGATCCGGAAGTTTGGTTACGTGTA
456 TATTTTTAAAAGATAAATTCATGTCTATAAAACCAAGATTAGATCCGGAAGTTTGGTTACGTATA
2798500 GGGAAGGTTATAGCACCCTGTAACAACCATCCAAATGATGGTACCATTTGATCTCCTGTTATCCA
521 GGGAAGGTTATAGCACCCTGTAACAACCATCCAAATGATGGTACCATTTGATCTCCTGTTATCCA
*
2798565 AAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCCAATATGTT
586 AAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATATGTT
* * *
2798630 GGTAATAATTTTAGGTCATTCCCTTACTTCAAGAGTATTCAAAGAGACTATTTGTTACGTTTTAA
651 GGTAATAATTTTAGGACATTCCCTTACTTCAAGAGTATTCAAAGAAACTATTTGTTACGTCTTAA
* *
2798695 AAAAGCTTAATCATTAGATTTATTAATATTTTATAAAAACTTTTATTTATAATATGTGAGATTTT
716 AAAAGCTTAATCATCAGATTTATTAATATTTTATAAAAAATTTTATTTATAATATGTGAGATTTT
2798760 GAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAGAATT
781 GAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAGAATT
*
2798825 TTTTATTTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTAAAGA
846 TTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTAAAGA
2798890 TTCAAAATCTAATTTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAAGAT
911 TTCAAAATCTAA-TTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAAGAT
*
2798955 TTTTTATCAAAAATTATCTT
975 TTTTTATCAAAAATTATCCT
*
2798975 TTAATATTTTTTTTGTCGATAATTTTGTTATGCTAATTTGAGTTCAAGTTTGTGACCTCCTTTTA
1 TTAATATTTTTTTTGTCGATAATTTTATTATGCTAATTTGAGTTCAAG-TTGTGACCTCCTTTTA
2799040 GGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTTGTTTTTTTTACTAATGT
65 GGAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAG-TTGTTTTTTTTACTAATGT
* * *
2799105 ACTATTTAAAAAATGTTTTTGATTATATGGTTAAGAAAAATTTTATAGAAATGAATGATATGGAA
129 ACTATTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAA
* **
2799170 TACAAGTTTTAGGAAACTTTTTATGGGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTT
194 TACAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTT
* * *
2799235 AATAATCCTAATATGTTTGATGAATTACAACCAATTAATTCATAAATCACGTTAATAATTATTAT
259 AATAATCCTAATATGTTTAATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCAT
** *
2799300 AACGTATAGATCAGTAAACCTACTGTTAGACTTTATTTCAAAGAGTCATCACCAATATTTTTCAT
324 AACGTATAGATCAGTAAACCTACCATTAGACTTTATTTCAAAGAGTCACCACCAATATTTTTCAT
* *
2799365 TTAAGTGTGATTGGTCACTTAATCGAATTTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTCA
389 TTAAGTGTGATTGATCACTTAATCGAATCTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTCA
* *
2799430 GATATTTTTAAAAGATAAATT-ATGTCTATAAAACCAAGATTAGATTCGGGAGTTTGGTTACGTA
454 GATATTTTTAAAAGATAAATTCATGTCTATAAAACCAAGATTAGATCCGGAAGTTTGGTTACGTA
2799494 TAGGGAAGGTTATAGCACCCTGTAACAACCATCCAAATGATGGTACCAATTTGATCTCCTGTTAT
519 TAGGGAAGGTTATAGCACCCTGTAACAACCATCCAAATGATGGTACC-ATTTGATCTCCTGTTAT
* *
2799559 CCAAAATCGTAAAAATCTTATCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATAT
583 CCAAAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATAT
**
2799624 GTTGGTAATAATTTTAGGACATTCCCTTACTTTGAGAGTATTCAAAGAAACTATTTGTTACG-CT
648 GTTGGTAATAATTTTAGGACATTCCCTTACTTCAAGAGTATTCAAAGAAACTATTTGTTACGTCT
* *
2799688 TAAAAGATGCTTAATCATCGGATTTATTAATATTTTATAAAAAATTTTATTTATAATATGTGAGA
713 TAAAA-AAGCTTAATCATCAGATTTATTAATATTTTATAAAAAATTTTATTTATAATATGTGAGA
2799753 TTTTGAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAG
777 TTTTGAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAG
* *
2799818 AGTTTTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATCATTA
842 AATTTTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTA
*
2799883 AAGATTCAAAATCTAATTTTATAAAAATATTTTATTTTCAAAAATATCTTCCAATATGTTGGTAA
907 AAGATTCAAAATCTAATTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAA
2799948 GATTTTTTATCAAAAATTATCCT
972 GATTTTTTATCAAAAATTATCCT
*
2799971 TCAATAT
1 TTAATAT
2799978 GTTGGTAAGA
Statistics
Matches: 947, Mismatches: 52, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
995 45 0.05
996 227 0.24
997 675 0.71
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (994 bp):
TTAATATTTTTTTTGTCGATAATTTTATTATGCTAATTTGAGTTCAAGTTGTGACCTCCTTTTAG
GAACTCTTATTGCTGTTGGTGAAACTATCTTAATAATATAGGAGTTGTTTTTTTTACTAATGTAC
TATTTAAAAAAAGTTTTTAATTATATGGTTAAGAAAAAATTTATAGAAATGAATGATATGGAATA
CAAGTTTTAGAAAACTTTTTATAAGGGTTAACAAATATTTTCTCTTAACTTGCTTGATAATTTAA
TAATCCTAATATGTTTAATGAATTACAACCAATTAATTCATAAATCACATTAATAATTATCATAA
CGTATAGATCAGTAAACCTACCATTAGACTTTATTTCAAAGAGTCACCACCAATATTTTTCATTT
AAGTGTGATTGATCACTTAATCGAATCTGTTTCATTTTAAAAAGATGTTCTAAGTTTGACTCAGA
TATTTTTAAAAGATAAATTCATGTCTATAAAACCAAGATTAGATCCGGAAGTTTGGTTACGTATA
GGGAAGGTTATAGCACCCTGTAACAACCATCCAAATGATGGTACCATTTGATCTCCTGTTATCCA
AAACCGTAAAAATCTTACCAAATAATTAGTTATTGAAAATTATCTTAAAATTACTCAAATATGTT
GGTAATAATTTTAGGACATTCCCTTACTTCAAGAGTATTCAAAGAAACTATTTGTTACGTCTTAA
AAAAGCTTAATCATCAGATTTATTAATATTTTATAAAAAATTTTATTTATAATATGTGAGATTTT
GAGAATCTTGATATTGAAAATCTTTTTCTAATTCTTCAATAATTTGGTAAAATTTAGAAAGAATT
TTTTATCTAAGAATTTACATAGAGATTGTTATTTGCAATGCTTTTAGTAACTCCATAATTAAAGA
TTCAAAATCTAATTTTATAAAAATATTTTATTTTAAAAAATATCTTCCAATATGTTGGTAAGATT
TTTTATCAAAAATTATCCT
Found at i:2799962 original size:37 final size:39
Alignment explanation
Indices: 2799911--2799993 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 39
2799901 TTATAAAAAT
*
2799911 ATTTTATTTTCAAAAA-TAT-CTTCCAATATGTTGGTAAG
1 ATTTTATTATCAAAAATTATCCTT-CAATATGTTGGTAAG
2799949 ATTTT-TTATCAAAAATTATCCTTCAATATGTTGGTAAG
1 ATTTTATTATCAAAAATTATCCTTCAATATGTTGGTAAG
2799987 ATTTTAT
1 ATTTTAT
2799994 GAAAATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
37 9 0.22
38 28 0.68
39 4 0.10
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (39 bp):
ATTTTATTATCAAAAATTATCCTTCAATATGTTGGTAAG
Found at i:2804066 original size:2 final size:2
Alignment explanation
Indices: 2804059--2804093 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2804049 TTCAAAAAGA
2804059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2804094 ATACCCCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2813454 original size:30 final size:30
Alignment explanation
Indices: 2813413--2813493 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 30
2813403 GTGAAAACAA
2813413 CAAAATGAGATTTTTTTTTA-CTA-ATATACT
1 CAAAATGAGATTTTTTTTTACCTACATAT--T
*
2813443 CAAAATAAGATTTTTTTTTCTACCTACATATT
1 CAAAATGAGA-TTTTTTTT-TACCTACATATT
2813475 CAAAATGAGATTTTTTTTT
1 CAAAATGAGATTTTTTTTT
2813494 TTAACAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
30 10 0.22
31 16 0.36
32 12 0.27
33 3 0.07
34 4 0.09
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (30 bp):
CAAAATGAGATTTTTTTTTACCTACATATT
Found at i:2813478 original size:32 final size:30
Alignment explanation
Indices: 2813413--2813494 Score: 105
Period size: 32 Copynumber: 2.7 Consensus size: 30
2813403 GTGAAAACAA
2813413 CAAAATGAGA-TTTTTTTTTACTAATATACT
1 CAAAATGAGATTTTTTTTTTACTAATATA-T
*
2813443 CAAAATAAGATTTTTTTTTCTACCTACATAT-T
1 CAAAATGAGATTTTTTTTT-TA-CTA-ATATAT
2813475 CAAAATGAGATTTTTTTTTT
1 CAAAATGAGATTTTTTTTTT
2813495 TAACAATATG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
30 9 0.20
31 9 0.20
32 21 0.46
33 3 0.07
34 4 0.09
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (30 bp):
CAAAATGAGATTTTTTTTTTACTAATATAT
Found at i:2813559 original size:34 final size:35
Alignment explanation
Indices: 2813498--2813565 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
2813488 TTTTTTTTAA
* * **
2813498 CAATATGCTCATTCGCCAAAACGAAAAA-CAAAGT
1 CAATATGCTCATACACCAAAAAAAAAAATCAAAGT
*
2813532 CAATATGCTCATACATCAAAAAAAAAAATCAAAG
1 CAATATGCTCATACACCAAAAAAAAAAATCAAAG
2813566 CACCAAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (35 bp):
CAATATGCTCATACACCAAAAAAAAAAATCAAAGT
Found at i:2817631 original size:15 final size:15
Alignment explanation
Indices: 2817611--2817640 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2817601 GAGGATAAAA
*
2817611 ATTATTTTTTTATTT
1 ATTATTTATTTATTT
2817626 ATTATTTATTTATTT
1 ATTATTTATTTATTT
2817641 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTATTTATTTATTT
Found at i:2818807 original size:3 final size:3
Alignment explanation
Indices: 2818801--2818965 Score: 135
Period size: 3 Copynumber: 56.3 Consensus size: 3
2818791 AAAAACGTAA
* * * **
2818801 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT AAC AGC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
2818849 AAC AAT AAC AAC AAC AAC AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
2818897 -AT ACT -AT AAT -AT AGT -AT AAGGT -AT TAT ACT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT
2818938 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2818966 TACTATAATA
Statistics
Matches: 137, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
2 8 0.06
3 127 0.93
4 1 0.01
5 1 0.01
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2818965 original size:68 final size:68
Alignment explanation
Indices: 2818801--2819004 Score: 240
Period size: 68 Copynumber: 3.1 Consensus size: 68
2818791 AAAAACGTAA
* * * * * *
2818801 AATAATAATAATAATAATAATAATAATAATAATA-ACAACAATA-A-CAGCAACA-A-TA-ACAA
1 AATAATAATAATAACAATAATAATAATAATAATATACTATAATATAGTA-TAACATATTATACTA
* *
2818860 CAAC
65 TAAT
* **
2818864 AACAATAATAATAACAATAATAATAATAATAATATACTATAATATAGTATAAGGTATTATACTAT
1 AATAATAATAATAACAATAATAATAATAATAATATACTATAATATAGTATAACATATTATACTAT
2818929 AAT
66 AAT
* *
2818932 AATAATAATAATAATAATAATAATAATAATAATATACTATAATATTGTATAACATATTATACTAT
1 AATAATAATAATAACAATAATAATAATAATAATATACTATAATATAGTATAACATATTATACTAT
2818997 AAT
66 AAT
2819000 AATAA
1 AATAA
2819005 CAAAGTGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
63 32 0.27
64 7 0.06
65 3 0.03
66 2 0.02
67 2 0.02
68 73 0.61
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (68 bp):
AATAATAATAATAACAATAATAATAATAATAATATACTATAATATAGTATAACATATTATACTAT
AAT
Found at i:2819466 original size:114 final size:114
Alignment explanation
Indices: 2819228--2819593 Score: 315
Period size: 114 Copynumber: 3.2 Consensus size: 114
2819218 TGGTTTTGTG
* * * * * * * * * * *
2819228 AGTCTAAAAATGATCTGACCTGAGTCAAGATCGAATAACTGGGCCGATACCACTAGTCTGAAGAT
1 AGTCCAAAAATGATTTAACCTGAGCCGAGATCGGATGACTGAGACGATACCACGAGTTTGAAGAT
* * * * * * * **
2819293 GACTAATATCAAGTCGAGGT-AGTAAATTAATAACTAAGATTATGTCACA
66 GACTAAGATCGAGTCGAGATCA-TAGATTAATGACTGAGATGATGTCGTA
* * * ** *
2819342 AGTCCGAAAATGATCTAACTTGAGTTGAGATCGGATGATTGAGACGATACCACGAGTTTGAAGAT
1 AGTCCAAAAATGATTTAACCTGAGCCGAGATCGGATGACTGAGACGATACCACGAGTTTGAAGAT
*
2819407 GACTAAGATCGAGTCGAGATCATAGATTAATGACTGAGATGATGTCGTG
66 GACTAAGATCGAGTCGAGATCATAGATTAATGACTGAGATGATGTCGTA
* * * * * * ** **
2819456 AGTTCAAAAATGATTTGACCTAAGCCGAGATTGGATGACTGGGATGATACCGTGAGTTTGAAGGC
1 AGTCCAAAAATGATTTAACCTGAGCCGAGATCGGATGACTGAGACGATACCACGAGTTTGAAGAT
* * * *
2819521 AACCAAGATCGAGTTGA-AGTCATAGATTAATGA-TCGAGATGATATCGTA
66 GACTAAGATCGAGTCGAGA-TCATAGATTAATGACT-GAGATGATGTCGTA
2819570 AGTCCAAAAATGATTTAACCTGAG
1 AGTCCAAAAATGATTTAACCTGAG
2819594 AAAAAATTGG
Statistics
Matches: 202, Mismatches: 47, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
113 2 0.01
114 199 0.99
115 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (114 bp):
AGTCCAAAAATGATTTAACCTGAGCCGAGATCGGATGACTGAGACGATACCACGAGTTTGAAGAT
GACTAAGATCGAGTCGAGATCATAGATTAATGACTGAGATGATGTCGTA
Found at i:2826736 original size:3 final size:3
Alignment explanation
Indices: 2826728--2826755 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2826718 CTGTCATACC
2826728 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2826756 CATACTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2826765 original size:25 final size:25
Alignment explanation
Indices: 2826737--2826820 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
2826727 CATAATAATA
2826737 ATAATAATAATAATAATAACATACT
1 ATAATAATAATAATAATAACATACT
** **
2826762 ATAAT-ATGGT-ATAAGGTATTATACT
1 ATAATAATAATAATAA--TAACATACT
*
2826787 ATAATAATACTAATAATAATACTATACT
1 ATAATAATAATAATAAT-A-AC-ATACT
2826815 ATAATA
1 ATAATA
2826821 TTGTATAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
23 4 0.09
24 3 0.07
25 18 0.41
26 4 0.09
27 4 0.09
28 11 0.25
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (25 bp):
ATAATAATAATAATAATAACATACT
Found at i:2826765 original size:28 final size:28
Alignment explanation
Indices: 2826734--2826820 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
2826724 TACCATAATA
2826734 ATAATAATAATAATAATAATAACATACT
1 ATAATAATAATAATAATAATAACATACT
** ** **
2826762 ATAAT-ATGGT-ATAA-GGTATTATACT
1 ATAATAATAATAATAATAATAACATACT
*
2826787 ATAATAATACTAATAATAAT-ACTATACT
1 ATAATAATAATAATAATAATAAC-ATACT
2826815 ATAATA
1 ATAATA
2826821 TTGTATAACA
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
25 12 0.28
26 7 0.16
27 7 0.16
28 17 0.40
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.36
Consensus pattern (28 bp):
ATAATAATAATAATAATAATAACATACT
Found at i:2826804 original size:12 final size:12
Alignment explanation
Indices: 2826782--2826810 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2826772 ATAAGGTATT
2826782 ATACT-ATAATA
1 ATACTAATAATA
2826793 ATACTAATAATA
1 ATACTAATAATA
2826805 ATACTA
1 ATACTA
2826811 TACTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (12 bp):
ATACTAATAATA
Found at i:2826838 original size:53 final size:53
Alignment explanation
Indices: 2826734--2826849 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 53
2826724 TACCATAATA
** *
2826734 ATAATAATAATAATAATAATAACATACTATAATATGGTATAAGGTATTATACT
1 ATAATAATAATAATAATAATAACATACTATAATATGGTATAACATACTATACT
* * *
2826787 ATAATAATACTAATAATAAT-ACTATACTATAATATTGTATAACATGCTATACT
1 ATAATAATAATAATAATAATAAC-ATACTATAATATGGTATAACATACTATACT
*
2826840 ATAGTAATAA
1 ATAATAATAA
2826850 CAAAGTGATA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 2 0.04
53 52 0.96
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (53 bp):
ATAATAATAATAATAATAATAACATACTATAATATGGTATAACATACTATACT
Found at i:2827555 original size:35 final size:35
Alignment explanation
Indices: 2827514--2827583 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
2827504 TAACAATACA
2827514 ACTTATCAA-TTTTTAAAAATATAACTTATTTGGCT
1 ACTTATCAACTTTTTAAAAATATAACTTA-TTGGCT
*
2827549 ACTTATCAACTTTTTAAAAATATAATTTATTGGCT
1 ACTTATCAACTTTTTAAAAATATAACTTATTGGCT
2827584 TCACCTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 15 0.45
36 18 0.55
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (35 bp):
ACTTATCAACTTTTTAAAAATATAACTTATTGGCT
Found at i:2829633 original size:37 final size:39
Alignment explanation
Indices: 2829582--2829664 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 39
2829572 TTATAAAAAT
* *
2829582 ATTTTATTTTCAAAAA-TAT-CTTCCAATATGTTGGTAAG
1 ATTTTATTATCAAAAATTATCCTT-CAATATGTTGATAAG
2829620 ATTTT-TTATCAAAAATTATCCTTCAATATGTTGATAAG
1 ATTTTATTATCAAAAATTATCCTTCAATATGTTGATAAG
2829658 ATTTTAT
1 ATTTTAT
2829665 GAAAATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
37 9 0.22
38 27 0.68
39 4 0.10
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (39 bp):
ATTTTATTATCAAAAATTATCCTTCAATATGTTGATAAG
Found at i:2838239 original size:15 final size:16
Alignment explanation
Indices: 2838219--2838248 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2838209 TCTAAATATC
2838219 TAAATAC-AAATCATA
1 TAAATACAAAATCATA
2838234 TAAATACAAAATCAT
1 TAAATACAAAATCAT
2838249 TTCATAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAATACAAAATCATA
Found at i:2838654 original size:16 final size:16
Alignment explanation
Indices: 2838633--2838672 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2838623 ATAATTAAAA
*
2838633 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
2838649 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
2838665 ATTATCAT
1 ATCATCAT
2838673 TTATTTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:2846737 original size:33 final size:33
Alignment explanation
Indices: 2846697--2846768 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
2846687 CAACATGATA
2846697 TTTTTTTCTA-CTA-ATATACTCAAAATAAGATTT
1 TTTTTTTCTACCTACATAT--TCAAAATAAGATTT
*
2846730 TTTTTTTCTACCTACATATTCAAAATGAGATTT
1 TTTTTTTCTACCTACATATTCAAAATAAGATTT
2846763 TTTTTT
1 TTTTTT
2846769 AACAATATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 29 0.81
34 3 0.08
35 4 0.11
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (33 bp):
TTTTTTTCTACCTACATATTCAAAATAAGATTT
Found at i:2846809 original size:34 final size:31
Alignment explanation
Indices: 2846771--2846838 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 31
2846761 TTTTTTTTAA
*
2846771 CAATATGCTCATTCGCCAAAAAGAAAAACAAAGT
1 CAATATGCTCATACGCCAAAAA-AAAAA-AAA-T
* *
2846805 CAATATGTTCATACGTCAAAAAAAAAAAAAT
1 CAATATGCTCATACGCCAAAAAAAAAAAAAT
2846836 CAA
1 CAA
2846839 AGCACCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.13
32 3 0.10
33 5 0.16
34 19 0.61
ACGTcount: A:0.54, C:0.18, G:0.09, T:0.19
Consensus pattern (31 bp):
CAATATGCTCATACGCCAAAAAAAAAAAAAT
Found at i:2856614 original size:114 final size:113
Alignment explanation
Indices: 2856424--2856789 Score: 324
Period size: 114 Copynumber: 3.2 Consensus size: 113
2856414 ATTTTTTCTC
* * * * * *
2856424 AGGTTAAATCATTTTTGGACTTACGATATCATCTCGATCATTAATCTATGACTTCAACTCGATCT
1 AGGTCAAATCATTTTTGAACTCACGACATCATCTCAATCATTAATCTATGAC-TCGACTCGATCT
* *** * * *
2856489 TGGTTGCCTTCAAACTCACGGTATCATCCCAGTCATCCAATCTCGGCTT
65 TAGTCATCTTCAAACTCACGGTATCGTCCCAGTCATCCGATCTCGACTT
2856538 AGGTCAAATCATTTTTGAACTCACGACATCATCTCAATCATTAATCTATGATCTCGACTCGATCT
1 AGGTCAAATCATTTTTGAACTCACGACATCATCTCAATCATTAATCTATGA-CTCGACTCGATCT
** * * * *
2856603 TAGTCATCTTCAAACTCGTGGTATCGTCTCAATCATCCGATCTCAACTC
65 TAGTCATCTTCAAACTCACGGTATCGTCCCAGTCATCCGATCTCGACTT
* * * *** * * * * * * *
2856652 AGGTTAGATCATTTTCGAACTTGTGACATAATCTTAGTTATTAATTTACT-ACCTCGACTTGATA
1 AGGTCAAATCATTTTTGAACTCACGACATCATCTCAATCATTAATCTA-TGA-CTCGACTCGATC
* * * *
2856716 TTAGTCATCTTCAGACT-AGCGGTATCGTCCCAGTTATTCGATCTTGACTT
64 TTAGTCATCTTCAAACTCA-CGGTATCGTCCCAGTCATCCGATCTCGACTT
*
2856766 AGGTCAGATCATTTTT-AGACTCAC
1 AGGTCAAATCATTTTTGA-ACTCAC
2856790 AAAACCACCC
Statistics
Matches: 200, Mismatches: 48, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
113 1 0.00
114 197 0.99
115 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (113 bp):
AGGTCAAATCATTTTTGAACTCACGACATCATCTCAATCATTAATCTATGACTCGACTCGATCTT
AGTCATCTTCAAACTCACGGTATCGTCCCAGTCATCCGATCTCGACTT
Found at i:2857561 original size:30 final size:32
Alignment explanation
Indices: 2857509--2857567 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
2857499 TTTTTGGAGC
*
2857509 TTTCTGAGAAAATTTGAGATTTTTTTAAGGAT
1 TTTCTGAGAAAATATGAGATTTTTTTAAGGAT
2857541 TTTC-GAGAAAATATGA-ATTTTTTTAAG
1 TTTCTGAGAAAATATGAGATTTTTTTAAG
2857568 AACACAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 11 0.42
31 11 0.42
32 4 0.15
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (32 bp):
TTTCTGAGAAAATATGAGATTTTTTTAAGGAT
Found at i:2857956 original size:17 final size:17
Alignment explanation
Indices: 2857905--2857957 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 17
2857895 ATTTTTTGAA
* *
2857905 TTTTATTTTCTTAA-GT
1 TTTTATTTTTTTAATTT
*
2857921 TTTTATTTTACTTTCATTT
1 TTTTATTTT--TTTAATTT
2857940 TTTTATTTTTTTAATTT
1 TTTTATTTTTTTAATTT
2857957 T
1 T
2857958 ACTGGTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.30
17 8 0.27
18 3 0.10
19 10 0.33
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTTAATTT
Found at i:2857958 original size:14 final size:14
Alignment explanation
Indices: 2857890--2857948 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
2857880 TTTTATTGTC
*
2857890 ATTTTATTTTTTGA
1 ATTTTATTTTTTTA
*
2857904 ATTTTATTTTCTTA
1 ATTTTATTTTTTTA
* *
2857918 AGTTT-TTATTTTA
1 ATTTTATTTTTTTA
* *
2857931 CTTTCATTTTTTT-
1 ATTTTATTTTTTTA
2857944 ATTTT
1 ATTTT
2857949 TTTAATTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 3
0.70 0.23 0.06
Matches are distributed among these distances:
13 11 0.33
14 22 0.67
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTATTTTTTTA
Found at i:2858261 original size:15 final size:15
Alignment explanation
Indices: 2858241--2858270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2858231 TTTTTTTAAA
*
2858241 AAATAAATAAATAAT
1 AAATAAAAAAATAAT
2858256 AAATAAAAAAATAAT
1 AAATAAAAAAATAAT
2858271 TTTTATCCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAAAAATAAT
Found at i:2863654 original size:12 final size:12
Alignment explanation
Indices: 2863639--2863663 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2863629 TACTTTTACC
2863639 TTTTATTTTATT
1 TTTTATTTTATT
2863651 TTTTATTTTATT
1 TTTTATTTTATT
2863663 T
1 T
2863664 ATTTGTTGAG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:2864025 original size:38 final size:39
Alignment explanation
Indices: 2863943--2864025 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 39
2863933 AATAATTTTC
* * *
2863943 ATAAAATCTTACCAACATATTGAAGGATAATTTTTAACA
1 ATAAAATCTTACCAACACATTGAAAGATAATTTTGAACA
* *
2863982 A-AAAATCTTATCATCACATTGAAAGAT-ATTTCTGAA-A
1 ATAAAATCTTACCAACACATTGAAAGATAATTT-TGAACA
2864019 ATAAAAT
1 ATAAAAT
2864026 ATTTATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
37 6 0.16
38 30 0.81
39 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (39 bp):
ATAAAATCTTACCAACACATTGAAAGATAATTTTGAACA
Found at i:2869815 original size:33 final size:32
Alignment explanation
Indices: 2869774--2869844 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
2869764 GCATATTGTT
2869774 AAAAAAAAATCTCATTTTGA-ATATGTAGGTAGA
1 AAAAAAAAATCTCATTTTGAGATAT-TA-GTAGA
*
2869807 AAAAAAAAATCTTATTTTGAGTATATTAGTAGA
1 AAAAAAAAATCTCATTTTGAG-ATATTAGTAGA
2869840 AAAAA
1 AAAAA
2869845 TATCATGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 29 0.83
34 2 0.06
35 4 0.11
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.31
Consensus pattern (32 bp):
AAAAAAAAATCTCATTTTGAGATATTAGTAGA
Found at i:2877832 original size:16 final size:16
Alignment explanation
Indices: 2877807--2877846 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2877797 CGATAAATAA
*
2877807 ATGATAATGATGATTT
1 ATGATGATGATGATTT
2877823 ATGATGATGATGATTT
1 ATGATGATGATGATTT
*
2877839 ACGATGAT
1 ATGATGAT
2877847 TTTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.40
Consensus pattern (16 bp):
ATGATGATGATGATTT
Found at i:2878256 original size:15 final size:16
Alignment explanation
Indices: 2878231--2878260 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2878221 ATCTTATGAA
2878231 ATGATTTTGTATTTAT
1 ATGATTTTGTATTTAT
2878247 ATGA-TTTGTATTTA
1 ATGATTTTGTATTTA
2878261 GATATTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (16 bp):
ATGATTTTGTATTTAT
Found at i:2888664 original size:2 final size:2
Alignment explanation
Indices: 2888657--2888683 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2888647 CCTTTTAAGT
2888657 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2888684 CTTTAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2894269 original size:38 final size:35
Alignment explanation
Indices: 2894209--2894284 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 35
2894199 TTTTTAGAAA
**
2894209 TATCTTCCAATATATTGGTAAGATTTTCTATCAAAAAT
1 TATCTTCCAATATATTAATAAGA-TTT-TAT-AAAAAT
* *
2894247 TATCTTTCAATATGTTAATAAGATTTTATAAAAAT
1 TATCTTCCAATATATTAATAAGATTTTATAAAAAT
2894282 TAT
1 TAT
2894285 TTCTTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 9 0.26
36 3 0.09
37 3 0.09
38 19 0.56
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (35 bp):
TATCTTCCAATATATTAATAAGATTTTATAAAAAT
Found at i:2895757 original size:17 final size:17
Alignment explanation
Indices: 2895725--2895758 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2895715 TGTTAATTAA
* *
2895725 AAAAATAATAATAATGG
1 AAAAATAAAAAAAATGG
2895742 AAAAATAAAAAAAATGG
1 AAAAATAAAAAAAATGG
2895759 TGGTTGAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAAAAATGG
Found at i:2895970 original size:20 final size:20
Alignment explanation
Indices: 2895953--2895990 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2895943 GCAATTTTAG
2895953 AATTTTTAGGC-ATTTTTTGA
1 AATTTTTA-GCAATTTTTTGA
2895973 AATTTTTAGCAATTTTTT
1 AATTTTTAGCAATTTTTT
2895991 TTTTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (20 bp):
AATTTTTAGCAATTTTTTGA
Found at i:2895988 original size:19 final size:18
Alignment explanation
Indices: 2895942--2895989 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
2895932 GAAGAGCATA
*
2895942 AGCAATTTTAGAATTTTT
1 AGCAATTTTTGAATTTTT
*
2895960 AGGCATTTTTTGAAATTTTT
1 A-GCAATTTTTG-AATTTTT
2895980 AGCAATTTTT
1 AGCAATTTTT
2895990 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (18 bp):
AGCAATTTTTGAATTTTT
Found at i:2903280 original size:11 final size:11
Alignment explanation
Indices: 2903264--2903290 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2903254 CAAATGGTGG
2903264 AAAATTTAAAT
1 AAAATTTAAAT
2903275 AAAATTTAAAT
1 AAAATTTAAAT
2903286 AAAAT
1 AAAAT
2903291 AATTGTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTTAAAT
Found at i:2903464 original size:41 final size:44
Alignment explanation
Indices: 2903329--2903513 Score: 128
Period size: 45 Copynumber: 4.1 Consensus size: 44
2903319 ATAAATAAAT
* * * * *
2903329 AAATAAAAAGAATTTCTAAAAAGGCCCAAATTGTGAAAAATTTAG
1 AAATAAAAATAAATTCT-AATAGGCTCAAATAGTGAAAAATTTAG
* * * *
2903374 AAATTCCTAAAAA-AAATTTTCTAAATTGACCCAAATAGTGAAAAGTTTAG
1 AAA----TAAAAATAAA--TTCT-AATAGGCTCAAATAGTGAAAAATTTAG
*
2903424 -AATAAAAA-AAACTTCT-A-AGGCTCAAATGGTGAAAAATTTAG
1 AAATAAAAATAAA-TTCTAATAGGCTCAAATAGTGAAAAATTTAG
* * *
2903465 AAATAAAAATAAATTCTAAATAGGCTCAAATTGTGAAAATTTTAA
1 AAATAAAAATAAATTCT-AATAGGCTCAAATAGTGAAAAATTTAG
2903510 AAAT
1 AAAT
2903514 TCAAAAGGAA
Statistics
Matches: 114, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
41 19 0.17
42 13 0.11
43 3 0.03
44 5 0.04
45 37 0.32
48 2 0.02
49 8 0.07
50 27 0.24
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (44 bp):
AAATAAAAATAAATTCTAATAGGCTCAAATAGTGAAAAATTTAG
Found at i:2911754 original size:38 final size:38
Alignment explanation
Indices: 2911703--2911779 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2911693 ATGCCAAATG
2911703 ACTTTTGATAAAATCAAATAATGTTTGTCCAATCCTTA
1 ACTTTTGATAAAATCAAATAATGTTTGTCCAATCCTTA
2911741 ACTTTTGATAAAATCAAATAATGTTTGTCCAATCCTTA
1 ACTTTTGATAAAATCAAATAATGTTTGTCCAATCCTTA
2911779 A
1 A
2911780 GTGCTGGTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (38 bp):
ACTTTTGATAAAATCAAATAATGTTTGTCCAATCCTTA
Found at i:2911774 original size:19 final size:19
Alignment explanation
Indices: 2911714--2911774 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2911704 CTTTTGATAA
2911714 AATCAAATAATGTTTGTCC
1 AATCAAATAATGTTTGTCC
** **
2911733 AATC-CTTAACT-TTTGATAA
1 AATCAAATAA-TGTTTG-TCC
2911752 AATCAAATAATGTTTGTCC
1 AATCAAATAATGTTTGTCC
2911771 AATC
1 AATC
2911775 CTTAAGTGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 7 0.23
19 16 0.53
20 7 0.23
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
AATCAAATAATGTTTGTCC
Found at i:2915194 original size:43 final size:41
Alignment explanation
Indices: 2915072--2915426 Score: 356
Period size: 41 Copynumber: 8.5 Consensus size: 41
2915062 GATTGTCAAT
* *
2915072 AAGCATTTTATTTTTCAAAGTTGTAGTGCCTCTGTTTAGAG
1 AAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * * **
2915113 GAGCATTTTATTTTTCAAACTTGTGGTATCTCTGTTTAGAG
1 AAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* *
2915154 AAGTAATTTATTTTTTCAAAAGTTGTGGTGCTTCTGTTTAGATG
1 AAGCAATTTA-TTTTTC-AAAGTTGTGGTGCCTCTGTTTAGA-G
* * *
2915198 -AGCAATTTATTTTGCAAAGTTATGGTGCCTCTGTTTAGAC
1 AAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
** * * *
2915238 AAATAATATATTTTTTCAAAAGTTGTGGTGCATTTGTTTAGA-
1 AAGCAATTTA-TTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAG
* * *
2915280 AAGGCAAATTATTTTTCCAAACTTTGTGGTACCTC-GATTTAGAG
1 AA-GCAATTTATTTTT-CAAA-GTTGTGGTGCCTCTG-TTTAGAG
*
2915324 GAGCAATTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAG
1 AAGCAATTTA-TTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAG
* * *
2915367 GAGCATTTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
1 AAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
**
2915408 AAGCCTTTTATTTTTCAAA
1 AAGCAATTTATTTTTCAAA
2915427 TTCATTGAGC
Statistics
Matches: 260, Mismatches: 40, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
41 112 0.43
42 33 0.13
43 104 0.40
44 11 0.04
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (41 bp):
AAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
Found at i:2915230 original size:84 final size:84
Alignment explanation
Indices: 2915078--2915410 Score: 404
Period size: 84 Copynumber: 4.0 Consensus size: 84
2915068 CAATAAGCAT
* * *
2915078 TTTA-TTTTTC-AAAGTTGTAGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAACTTGTGGTA
1 TTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTA
*
2915141 TCTCTGTTTAGAGAAGTAA
66 CCTCTGTTTAGAGAAGTAA
* * * * *
2915160 TTTATTTTTTCAAAAGTTGTGGTGCTTCTGTTTAGATGAGCAATTTATTTTGCAAAGTTATGGTG
1 TTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTA
* *
2915225 CCTCTGTTTAGACAAATAA
66 CCTCTGTTTAGAGAAGTAA
* * * * * *
2915244 TATATTTTTTCAAAAGTTGTGGTGCATTTGTTTAGA-AAGGCAAATTATTTTTCCAAACTTTGTG
1 TTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGA-GCAATTTATTTTT-CAAA-GTTGTG
* *
2915308 GTACCTC-GATTTAGAGGAGCAA
63 GTACCTCTG-TTTAGAGAAGTAA
* * *
2915330 TTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGATG
1 TTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTA
2915395 CCTCTGTTTAGAGAAG
66 CCTCTGTTTAGAGAAG
2915411 CCTTTTATTT
Statistics
Matches: 209, Mismatches: 34, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
82 4 0.02
83 7 0.03
84 124 0.59
85 10 0.05
86 63 0.30
87 1 0.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (84 bp):
TTTATTTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTA
CCTCTGTTTAGAGAAGTAA
Found at i:2915882 original size:20 final size:20
Alignment explanation
Indices: 2915857--2915894 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2915847 GCAAATTTAG
*
2915857 AATTTTTAAGAATTTTTTGA
1 AATTTTTAACAATTTTTTGA
*
2915877 AATTTTTGACAATTTTTT
1 AATTTTTAACAATTTTTT
2915895 TTTTGGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
AATTTTTAACAATTTTTTGA
Found at i:2926660 original size:3 final size:3
Alignment explanation
Indices: 2926646--2926682 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2926636 AAGTGATGAC
*
2926646 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2926683 ACAAGAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2927070 original size:31 final size:33
Alignment explanation
Indices: 2927032--2927092 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
2927022 CAAACTTTTT
2927032 TTCTCTTTT-T-TTTTTCTTTCTCTTTTCTCCC
1 TTCTCTTTTCTATTTTTCTTTCTCTTTTCTCCC
* *
2927063 TTCTCTTTTCTATTTTTTTTTCTTTTTTCT
1 TTCTCTTTTCTATTTTTCTTTCTCTTTTCT
2927093 ATCCGAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 1 0.04
33 16 0.62
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (33 bp):
TTCTCTTTTCTATTTTTCTTTCTCTTTTCTCCC
Found at i:2927273 original size:17 final size:17
Alignment explanation
Indices: 2927251--2927290 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
2927241 CCTATACGTC
2927251 AGTTTGACGATTTTTTT
1 AGTTTGACGATTTTTTT
2927268 AGTTTGACGATTTTTTT
1 AGTTTGACGATTTTTTT
2927285 AGTTTG
1 AGTTTG
2927291 GTTCTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (17 bp):
AGTTTGACGATTTTTTT
Found at i:2933303 original size:24 final size:23
Alignment explanation
Indices: 2933247--2933303 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
2933237 AAATTTTCAA
2933247 CAAATAACTTGTCCCTTTTATTGG
1 CAAATAACTTGTCCCTTTTA-TGG
* *
2933271 CCAAT-ACTTGTCCCCTCTTTA-GT
1 CAAATAACTTGT-CCCT-TTTATGG
2933294 CAAATAACTT
1 CAAATAACTT
2933304 TAAGATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
23 11 0.41
24 12 0.44
25 4 0.15
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (23 bp):
CAAATAACTTGTCCCTTTTATGG
Found at i:2939273 original size:21 final size:21
Alignment explanation
Indices: 2939243--2939290 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
2939233 AAAAGATTAT
* *
2939243 AAATTTTTA-TATTTATTTTAG
1 AAATTGTTATTATTTA-TTAAG
2939264 AAATTGTTATTTATTTATTAAG
1 AAATTGTTA-TTATTTATTAAG
2939286 AAATT
1 AAATT
2939291 AACTTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
AAATTGTTATTATTTATTAAG
Found at i:2941785 original size:25 final size:23
Alignment explanation
Indices: 2941733--2941785 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 23
2941723 GAATGGCATT
*
2941733 AATAATTATCATAAAAAAATAGA
1 AATAATTATAATAAAAAAATAGA
*
2941756 GATAATT-TAATAGAAAAAATACAGA
1 AATAATTATAATA-AAAAAAT--AGA
2941781 AATAA
1 AATAA
2941786 CACATGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.17
23 13 0.54
25 7 0.29
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.25
Consensus pattern (23 bp):
AATAATTATAATAAAAAAATAGA
Found at i:2947494 original size:36 final size:36
Alignment explanation
Indices: 2947442--2947520 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
2947432 AGGTGTGCTC
2947442 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
1 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
* *
2947478 CAGGAGCAGTCGCCCCACTACGGCTTGAGGATGTCT
1 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
2947514 CAGGAGC
1 CAGGAGC
2947521 CTCATCAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.16
Consensus pattern (36 bp):
CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
Found at i:2948149 original size:33 final size:34
Alignment explanation
Indices: 2948083--2948152 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
2948073 TTTTTTCTGG
**
2948083 CAATATACTCATACGCCACAAAGGGAAACAAAGT
1 CAATATACTCATACGCCACAAAAAGAAACAAAGT
*
2948117 CAATATGCTCATACGCCA-AAAAAGAAACAAAGT
1 CAATATACTCATACGCCACAAAAAGAAACAAAGT
2948150 CAA
1 CAA
2948153 GGCACCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 16 0.48
34 17 0.52
ACGTcount: A:0.50, C:0.23, G:0.13, T:0.14
Consensus pattern (34 bp):
CAATATACTCATACGCCACAAAAAGAAACAAAGT
Found at i:2953681 original size:36 final size:36
Alignment explanation
Indices: 2953629--2953707 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
2953619 GGTGTGGCTC
2953629 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
1 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
* *
2953665 CAGGAGCAGTCGCCCCACTACGGCTTGAGGATGTCT
1 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
2953701 CAGGAGC
1 CAGGAGC
2953708 CTCATCAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.16
Consensus pattern (36 bp):
CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
Found at i:2954336 original size:33 final size:34
Alignment explanation
Indices: 2954270--2954339 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
2954260 TTTTTTCTGG
**
2954270 CAATATACTCATACGCCACAAAGGGAAACAAAGT
1 CAATATACTCATACGCCACAAAAAGAAACAAAGT
*
2954304 CAATATGCTCATACGCCA-AAAAAGAAACAAAGT
1 CAATATACTCATACGCCACAAAAAGAAACAAAGT
2954337 CAA
1 CAA
2954340 GGCACCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 16 0.48
34 17 0.52
ACGTcount: A:0.50, C:0.23, G:0.13, T:0.14
Consensus pattern (34 bp):
CAATATACTCATACGCCACAAAAAGAAACAAAGT
Found at i:2959887 original size:36 final size:36
Alignment explanation
Indices: 2959835--2959913 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
2959825 GGTGTGGCTC
2959835 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
1 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
* *
2959871 CAGGAGCAGTCGCCCCACTACGGCTTGAGGATGTCT
1 CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
2959907 CAGGAGC
1 CAGGAGC
2959914 CTCATCAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.16
Consensus pattern (36 bp):
CAGGAGCAGTCACCCCACCACGGCTTGAGGATGTCT
Found at i:2961038 original size:33 final size:34
Alignment explanation
Indices: 2960972--2961041 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
2960962 TTTTTTCTAG
**
2960972 CAATATACTCATACGCCACAAAGGGAAACAAAGT
1 CAATATACTCATACGCCACAAAAAGAAACAAAGT
*
2961006 CAATATGCTCATACGCCA-AAAAAGAAACAAAGT
1 CAATATACTCATACGCCACAAAAAGAAACAAAGT
2961039 CAA
1 CAA
2961042 GGCACCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 16 0.48
34 17 0.52
ACGTcount: A:0.50, C:0.23, G:0.13, T:0.14
Consensus pattern (34 bp):
CAATATACTCATACGCCACAAAAAGAAACAAAGT
Found at i:2964167 original size:17 final size:18
Alignment explanation
Indices: 2964130--2964168 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2964120 TAATTTCGAT
2964130 AAAAGGAAAATTAAAATG
1 AAAAGGAAAATTAAAATG
*
2964148 AAAAGGAAAA-TAATATG
1 AAAAGGAAAATTAAAATG
2964165 AAAA
1 AAAA
2964169 CCACATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAGGAAAATTAAAATG
Found at i:2966118 original size:20 final size:20
Alignment explanation
Indices: 2966080--2966133 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2966070 TATAAATTTT
2966080 TTAAA-ATTATATT-TATAA
1 TTAAATATTATATTATATAA
*
2966098 TTAAATATTATTTTATATAA
1 TTAAATATTATATTATATAA
*
2966118 TTAACTATTATATTAT
1 TTAAATATTATATTAT
2966134 CGATTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 5 0.16
19 7 0.23
20 19 0.61
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATATTATATTATATAA
Found at i:2966692 original size:15 final size:16
Alignment explanation
Indices: 2966672--2966702 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2966662 TTAATTATTA
2966672 ATTTTA-ATAAATTTT
1 ATTTTACATAAATTTT
2966687 ATTTTACATAAATTTT
1 ATTTTACATAAATTTT
2966703 TATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTACATAAATTTT
Found at i:2973732 original size:2 final size:2
Alignment explanation
Indices: 2973725--2973751 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2973715 TCTCTGGTGC
2973725 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2973752 AAGGGTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2974359 original size:25 final size:25
Alignment explanation
Indices: 2974313--2974365 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
2974303 TTACAGCATA
**
2974313 ATTTTTTATTTGAAAATTTTATT-T
1 ATTTTTTATTTGAAAAAATTATTAT
*
2974337 ATTTTTTATTTTTAAAAAATTATTAT
1 ATTTTTTA-TTTGAAAAAATTATTAT
2974363 ATT
1 ATT
2974366 GATAAAGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 12 0.50
26 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTTTTTATTTGAAAAAATTATTAT
Found at i:2978260 original size:24 final size:24
Alignment explanation
Indices: 2978233--2978279 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2978223 TCCCTAAAAA
2978233 AATAGGTTCAGGTCTACTAACCAG
1 AATAGGTTCAGGTCTACTAACCAG
*
2978257 AATAGGTTCAGGTCTATTAACCA
1 AATAGGTTCAGGTCTACTAACCA
2978280 AAACAGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (24 bp):
AATAGGTTCAGGTCTACTAACCAG
Found at i:2978698 original size:64 final size:63
Alignment explanation
Indices: 2978623--2978863 Score: 253
Period size: 60 Copynumber: 3.9 Consensus size: 63
2978613 TCTCAAAATA
* * * *
2978623 TTTTTTTGAAAACTTTAGTTTCGAGGAAAATTGATACTTTCAACTTCTCCTAAAAAAAACTTTT
1 TTTTTTTGAAAA-TTTAGTTTCAAGAAAAATTGATACTTTCAACTTCTCCTAAAAAAAAATCTT
* * *
2978687 TTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATC--
1 TTTTTTTGAAAATTTAGTTTCAAGAAAAATTGATACTTTCAACTTCTCCTAAAAAAAAATCTT
* * * ** *
2978748 -TTTTTTGAAAATTTA-TTCTTAAGAAAAATTGATGCTTTCAACTTTTATTAAAAAAAAAAC--
1 TTTTTTTGAAAATTTAGTT-TCAAGAAAAATTGATACTTTCAACTTCTCCTAAAAAAAAATCTT
* * * *
2978808 CTTTTTTGAAAATTTA-TTCTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 TTTTTTTGAAAATTTAGTT-TCAAGAAAAATTGATACTTTCAACTTCTCCTAAAAAA
2978864 TATTTTTTTT
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
59 2 0.01
60 53 0.33
61 51 0.32
63 42 0.26
64 12 0.08
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.43
Consensus pattern (63 bp):
TTTTTTTGAAAATTTAGTTTCAAGAAAAATTGATACTTTCAACTTCTCCTAAAAAAAAATCTT
Found at i:2978770 original size:60 final size:60
Alignment explanation
Indices: 2978590--2978863 Score: 322
Period size: 61 Copynumber: 4.5 Consensus size: 60
2978580 TTGTACAAGA
* * * * **
2978590 AAAAATTGACACTTTCAACTTTTTCT--CAAAATAT-TTTTTTGAAAACTTTAGTT-TCGAG
1 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATCTTTTTTGAAAA-TTTA-TTCTTAAG
* * * * *
2978648 GAAAATTGATACTTTCAACTTCTCCTAAAAAAAACTTTTTTTTTTTGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAA---ATCTTTTTTGAAAATTTATTCTTAAG
2978711 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATCTTTTTTGAAAATTTATTCTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATCTTTTTTGAAAATTTATTCTTAAG
* ** *
2978771 AAAAATTGATGCTTTCAACTTTTATTAAAAAAAAAACCTTTTTTGAAAATTTATTCTTAAG
1 AAAAATTGATACTTTCAACTTTTCCT-AAAAAAAAATCTTTTTTGAAAATTTATTCTTAAG
*
2978832 AAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAAATTGATACTTTCAACTTTTCCTAAAAAA
2978864 TATTTTTTTT
Statistics
Matches: 186, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
58 22 0.12
60 55 0.30
61 56 0.30
62 2 0.01
63 40 0.22
64 11 0.06
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (60 bp):
AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATCTTTTTTGAAAATTTATTCTTAAG
Found at i:2978795 original size:32 final size:31
Alignment explanation
Indices: 2978699--2978854 Score: 76
Period size: 30 Copynumber: 5.1 Consensus size: 31
2978689 TTTTTGAAAA
*
2978699 TTTATTTTTAAGAAAAATTGATACTTTCAAC-
1 TTTATTCTTAAGAAAAATTGAT-CTTTCAACT
* * * * * **
2978730 TTT-TCCTAAAAAAAAATCT--TTTTTGAAAA
1 TTTATTCTTAAGAAAAAT-TGATCTTTCAACT
2978759 TTTATTCTTAAGAAAAATTGATGCTTTCAACT
1 TTTATTCTTAAGAAAAATTGAT-CTTTCAACT
** * * **
2978791 TTTATT-AAAAAAAAAACCTT--T-TTTGAAAA
1 TTTATTCTTAAGAAAAA--TTGATCTTTCAACT
2978820 TTTATTCTTAAGAAAAATTGATACTTTCAACT
1 TTTATTCTTAAGAAAAATTGAT-CTTTCAACT
2978852 TTT
1 TTT
2978855 CCTCAAAAAT
Statistics
Matches: 86, Mismatches: 26, Indels: 25
0.63 0.19 0.18
Matches are distributed among these distances:
28 7 0.08
29 16 0.19
30 29 0.34
31 13 0.15
32 19 0.22
33 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (31 bp):
TTTATTCTTAAGAAAAATTGATCTTTCAACT
Found at i:2978873 original size:121 final size:122
Alignment explanation
Indices: 2978590--2978873 Score: 353
Period size: 121 Copynumber: 2.3 Consensus size: 122
2978580 TTGTACAAGA
* * * *
2978590 AAAAATTGACACTTTCAACTTTTTCTC-AAAATA-TTTTTTTGAAAACTTTAGTTTCGAGGAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTAGTTTCAAGAAAAA
* **** *
2978653 TTGATACTTTCAACTTCTCCTAAAAAAAACTTTTTTTTTTTGAAAATTTATTTTTAAG
66 TTGATACTTTCAACTTCTACTAAAAAAAAC-AACCTTTTTTGAAAATTTATTCTTAAG
* * * *
2978711 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAATCTTTTTTGAAAA-TTTA-TTCTTAAGAAA
1 AAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTGAAAACTTTAGTT-TCAAGAAA
* * *
2978774 AATTGATGCTTTCAACTTTTATTAAAAAAAA-AACCTTTTTTGAAAATTTATTCTTAAG
64 AATTGATACTTTCAACTTCTACTAAAAAAAACAACCTTTTTTGAAAATTTATTCTTAAG
2978832 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2978874 ATTTTTTTTA
Statistics
Matches: 139, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
120 13 0.09
121 72 0.52
122 2 0.01
123 41 0.29
124 11 0.08
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (122 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTAGTTTCAAGAAAAA
TTGATACTTTCAACTTCTACTAAAAAAAACAACCTTTTTTGAAAATTTATTCTTAAG
Found at i:2978910 original size:4 final size:4
Alignment explanation
Indices: 2978903--2978998 Score: 73
Period size: 4 Copynumber: 24.8 Consensus size: 4
2978893 AAAGAAAACG
2978903 AAAT AAAT AAAAT AAAT -AA- AAAT AAAT AAAT AAAT -AA- AAAT AAAT
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
2978948 AAAT AAATT AAAC AACCAT -AAT ATAAT -AAT -AAT AAAT -AAT AAAT
1 AAAT AAA-T AAAT AA--AT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
*
2978992 ATAT AAA
1 AAAT AAA
2978999 ACAAAAAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
3 19 0.25
4 44 0.58
5 12 0.16
6 1 0.01
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:2978914 original size:14 final size:14
Alignment explanation
Indices: 2978903--2979015 Score: 83
Period size: 14 Copynumber: 7.9 Consensus size: 14
2978893 AAAGAAAACG
2978903 AAATAAAT-AAAAT
1 AAATAAATAAAAAT
2978916 AAATAAA-AATAAAT
1 AAATAAATAA-AAAT
2978930 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
2978944 AAATAAAT-AAATT
1 AAATAAATAAAAAT
*
2978957 AAACAACCATAATATAAT
1 AAATAA--ATAA-A-AAT
2978975 -AAT-AATAAATAAT
1 AAATAAATAAA-AAT
* *
2978988 AAATATATAAAACAA
1 AAATAAATAAAA-AT
*
2979003 AAAAAAATAAAAA
1 AAATAAATAAAAA
2979016 GAAACGAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
13 22 0.27
14 32 0.40
15 20 0.25
16 2 0.02
17 3 0.04
18 2 0.02
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:2978935 original size:18 final size:18
Alignment explanation
Indices: 2978903--2979015 Score: 101
Period size: 18 Copynumber: 6.2 Consensus size: 18
2978893 AAAGAAAACG
2978903 AAATAAATAAAATAAATAA
1 AAATAAAT-AAATAAATAA
2978922 AAATAAATAAATAAATAA
1 AAATAAATAAATAAATAA
2978940 AAATAAATAAATAAATTAA
1 AAATAAATAAATAAA-TAA
*
2978959 ACAACCATAATATAAT-AATAA
1 A-AA-TA-AATA-AATAAATAA
*
2978980 TAAAT-AATAAATATAT-A
1 -AAATAAATAAATAAATAA
*
2978997 AAACAAA-AAA-AAATAA
1 AAATAAATAAATAAATAA
2979013 AAA
1 AAA
2979016 GAAACGAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
15 3 0.04
16 10 0.12
17 6 0.08
18 31 0.39
19 12 0.15
20 2 0.03
21 6 0.08
22 7 0.09
23 3 0.04
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATAAATAAATAAATAA
Found at i:2979932 original size:18 final size:18
Alignment explanation
Indices: 2979909--2979947 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2979899 AAATTAAATA
2979909 ATAGATAAATTATAACAT
1 ATAGATAAATTATAACAT
2979927 ATAGATAAATTATAACAT
1 ATAGATAAATTATAACAT
2979945 ATA
1 ATA
2979948 ATCAGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAGATAAATTATAACAT
Found at i:2979957 original size:22 final size:20
Alignment explanation
Indices: 2979905--2979963 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 20
2979895 ATTAAAATTA
2979905 AATAATAGATAAATTATAAC
1 AATAATAGATAAATTATAAC
2979925 -AT-ATAGATAAATTATAAC
1 AATAATAGATAAATTATAAC
2979943 ATATAATCAGATAAATATATA
1 A-ATAAT-AGATAAAT-TATA
2979964 TAAATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 2 0.06
20 2 0.06
21 2 0.06
22 8 0.24
23 4 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
AATAATAGATAAATTATAAC
Found at i:2980105 original size:31 final size:30
Alignment explanation
Indices: 2980060--2980140 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
2980050 AAATAAAAGA
* * * *
2980060 AAAAATATATATAAAAAATAAT-AACAATAAT
1 AAAAAT-TAAATAAAAAAAAATGAAAAAT-AC
2980091 AAAAATGTAAATAAAATAAAAATGAAAAATAC
1 AAAAAT-TAAATAAAA-AAAAATGAAAAATAC
2980123 AAAAATTAAATAAAAAAA
1 AAAAATTAAATAAAAAAA
2980141 GAAAATGGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 3 0.07
31 23 0.53
32 12 0.28
33 5 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (30 bp):
AAAAATTAAATAAAAAAAAATGAAAAATAC
Found at i:2980108 original size:17 final size:17
Alignment explanation
Indices: 2980088--2980137 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
2980078 TAATAACAAT
2980088 AATAAAAATGTAAATAA
1 AATAAAAATGTAAATAA
2980105 AATAAAAATG-AAA-AA
1 AATAAAAATGTAAATAA
* *
2980120 TACAAAAAT-TAAATAA
1 AATAAAAATGTAAATAA
2980136 AA
1 AA
2980138 AAAGAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 12 0.43
16 6 0.21
17 10 0.36
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (17 bp):
AATAAAAATGTAAATAA
Found at i:2980120 original size:7 final size:6
Alignment explanation
Indices: 2980024--2980126 Score: 50
Period size: 6 Copynumber: 16.5 Consensus size: 6
2980014 AGTAATAAAT
* * *
2980024 AAATAA ATAATAA ATAGAT-A AGATAA AAATAA AAGA-AA AAATAT ATATAAA
1 AAATAA A-AATAA A-A-ATAA AAATAA AAATAA AA-ATAA AAATAA AAAT-AA
* * * **
2980075 AAATAA TAACAA TAATAA AAATGT AAAT-A AAATAA AAATGAA AAATACA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATA-A
2980124 AAA
1 AAA
2980127 ATTAAATAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
5 7 0.09
6 41 0.55
7 25 0.33
8 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:2980980 original size:161 final size:161
Alignment explanation
Indices: 2980774--2981910 Score: 882
Period size: 161 Copynumber: 7.0 Consensus size: 161
2980764 TTAATATTGC
* * * * * * *
2980774 AAAAAGGCCTAAACAGACATAAATCATAACTTGTTCATACATATCAAATCGTGAAAATCAAATTC
1 AAAAAGTCTTAAAAAGACATAAATAATAACTTTTTCACACATATC-AATCGTGAAAATCAAGTTC
*
2980839 AATCATTCAGACAAGTTT-ATATCATGTATTGAAGCTATCTAAA-TGTTAAAATATAAATATAAC
65 AATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAATATAAC
** * * * * *
2980902 TGTAAAATTAAATTTTTTCTCTTTATTGACGTA
130 TACAAATTTACATTTTTGC-CTTTAATGACATA
* * * * * * * *
2980935 ATAGAGTCTTAAAAAAACATAAATGATAACATTTTCACACATATC-AGCTGTAAAAATTAAGTTC
1 AAAAAGTCTTAAAAAGACATAAATAATAACTTTTTCACACATATCAATC-GTGAAAATCAAGTTC
* * * * *
2980999 AATCAATCATTTGGATAAATTTAATATCATGTATTAAACCTATCTGAACTGTTAAAATCGA-ATA
65 AATCATTCA----GACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAAT--ATA-A
* * *
2981063 ATA-AAC-ACAAATTTGCATTTTAGCCTTTTAACAGCACA-A
123 ATATAACTACAAATTTACATTTTTGCC-TTTAA-TG-ACATA
* * * * *
2981102 AAAAA-TAC-TAAACAGATATAAATGATAACTTTTTCACACATATTATTCGTGAAAATCAAGTTC
1 AAAAAGT-CTTAAAAAGACATAAATAATAACTTTTTCACACATATCAATCGTGAAAATCAAGTTC
* * * * * * *
2981165 AATCATTCAAAAAAGTTTAATATAATGTATTTAAGCTATCTAAAATGTTAAAACATAAAAATCAA
65 AATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAATAT-AA
* * * * **
2981230 -TGCAAAATAACATTTTTACCTTTTAACAACATA
129 CTACAAATTTACATTTTTGCC-TTTAATGACATA
* ** * * *
2981263 ACAAAGTCCAAAAAAGACATAAACAATAACTTTTTCACACATATCAATCATGAAAACCAAGTTCA
1 AAAAAGTCTTAAAAAGACATAAATAATAACTTTTTCACACATATCAATCGTGAAAATCAAGTTCA
* * * *
2981328 ATTATTC-GAACAAGTTTAATATTATGTATTAAAACTATCTAAACTGTTAAAATA-GAATAATAA
66 ATCATTCAG-ACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAAT-ATAA
* * ** *
2981391 ATACAATTTTGTA-TTTTGATCTTTTAAT-AGCATA
129 CTACAAATTTACATTTTTG--CCTTTAATGA-CATA
* * ** * * * *
2981425 AAAAA-TTTTAAATAGACATAAACGATAATTTTTTCACACATATAAACCGTGCAAA-CTAAGTTC
1 AAAAAGTCTTAAAAAGACATAAATAATAACTTTTTCACACATATCAATCGTGAAAATC-AAGTTC
* * * **
2981488 AATCATTCAAACAAGTTTAATATCATTTATTTAAGCTATCTAAACTGTTAAAAT-GGAATAATAA
65 AATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAAT-ATAA
* * * *
2981552 -AAGCAAATTTGCATTTTGGCCTTTTAATGGCATA
129 CTA-CAAATTTACATTTTTGCC-TTTAATGACATA
** * ** *
2981586 AAAAAGTAATAAATAGACATAACCAATAACTTTTTTCACAC--ATCAATCATGAAAATCAAGTTC
1 AAAAAGTCTTAAAAAGACATAAATAATAAC-TTTTTCACACATATCAATCGTGAAAATCAAGTTC
* * *
2981649 AATCATTCGGATAAGTTTAATATCATGTATT-AAGCTATCTAAACTATTAAAATATAAATATAAC
65 AATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAATATAAC
* * * *
2981713 TACATATTTACATTTTTGCTCGTTAATGATACA
130 TACAAATTTACATTTTTGC-CTTTAATGACATA
* * * *
2981746 ACAAAGT-TCTAAAAAGATATAAATAATAAC-TTTTCACACATATCAACCGTGAAAATTAAGTTC
1 AAAAAGTCT-TAAAAAGACATAAATAATAACTTTTTCACACATATCAATCGTGAAAATCAAGTTC
* * * * * *
2981809 AATCATTCA-AGCAAGTTTAATATAATGTATTGAAGCTATCCAAACTGTTAAAACAAAAAAATAA
65 AATCATTCAGA-CAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAATATAA
* *
2981873 CTACATATTTACATTTTTGCCTTTTAATGACACA
129 CTACAAATTTACATTTTTGCC-TTTAATGACATA
2981907 AAAA
1 AAAA
2981911 GTGCTAAACG
Statistics
Matches: 773, Mismatches: 156, Indels: 94
0.76 0.15 0.09
Matches are distributed among these distances:
158 9 0.01
159 3 0.00
160 146 0.19
161 284 0.37
162 195 0.25
163 11 0.01
164 7 0.01
165 23 0.03
166 77 0.10
167 11 0.01
168 7 0.01
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (161 bp):
AAAAAGTCTTAAAAAGACATAAATAATAACTTTTTCACACATATCAATCGTGAAAATCAAGTTCA
ATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAATATAAATATAACT
ACAAATTTACATTTTTGCCTTTAATGACATA
Found at i:2981508 original size:323 final size:320
Alignment explanation
Indices: 2980714--2981910 Score: 1063
Period size: 321 Copynumber: 3.7 Consensus size: 320
2980704 GTAATGGGAG
* * * * **
2980714 CTATCTAAACTATAAAAATAGAACAATAATTGTAATTTTGCA-TTTG-TCTTTTAATATTGC--A
1 CTATCTAAACTGTTAAAATAGAATAATAAATACAATTTTGCATTTTGATCTTTTAATA--GCATA
*** * * * *
2980775 AAAAGGCCTAAACAGACATAAATC-ATAACTTGTTCATACATATCAAATCGTGAAAATCAAATTC
64 AAAAATTCTAAACAGACATAAA-CGATAACTTTTTCACACATAT-AAACCGTGAAAATCAAGTTC
* * * *
2980839 AATCATTCAGACAAGTTT-ATATCATGTATTGAAGCTATCT-AAATGTTAAAATATAAATATAAC
127 AATCATTCAAACAAGTTTAATATAATGTATTGAAGCTATCTAAAATGTTAAAACATAAAAATAA-
* * * * * * **
2980902 TGTAAAATTAA-ATTTTTTCTCTTTATTGACGTAATAGAGTCTTAAAAAA-ACATAAATGATAAC
191 TGCAAAA-TAACATTTTTCCT-TTTAATGACATAAAAAAGTC--AAAAAAGACATAAACAATAAC
* * * * *
2980965 ATTTTCACACATATC-AGC-TGTAAAAATTAAGTTCAATCAATCATTTGGATAAATTTAATATCA
252 TTTTTCACACATATCAATCATG--AAAATCAAGTTCAAT---T-ATTCGGATAAGTTTAATATCA
*
2981028 TGTATTAAAC
311 TGTATTAAAA
* * * * * * *
2981038 CTATCTGAACTGTTAAAATCGAATAATAAACACAAATTTGCATTTT-AGCCTTTTAACAGCACAA
1 CTATCTAAACTGTTAAAATAGAATAATAAATACAATTTTGCATTTTGA-TCTTTTAATAGCA-TA
* * * * **
2981102 AAAAATACTAAACAGATATAAATGATAACTTTTTCACACATATTATTCGTGAAAATCAAGTTCAA
64 AAAAATTCTAAACAGACATAAACGATAACTTTTTCACACATATAAACCGTGAAAATCAAGTTCAA
* *
2981167 TCATTCAAAAAAGTTTAATATAATGTATTTAAGCTATCTAAAATGTTAAAACATAAAAATCAATG
129 TCATTCAAACAAGTTTAATATAATGTATTGAAGCTATCTAAAATGTTAAAACATAAAAAT-AATG
** *
2981232 CAAAATAACATTTTTACCTTTTAACAACATAACAAAGTCCAAAAAAGACATAAACAATAACTTTT
193 CAAAATAACATTTTT-CCTTTTAATGACATAAAAAAGT-CAAAAAAGACATAAACAATAACTTTT
* * * *
2981297 TCACACATATCAATCATGAAAACCAAGTTCAATTATTCGAACAAGTTTAATATTATGTATTAAAA
256 TCACACATATCAATCATGAAAATCAAGTTCAATTATTCGGATAAGTTTAATATCATGTATTAAAA
*
2981362 CTATCTAAACTGTTAAAATAGAATAATAAATACAATTTTGTATTTTGATCTTTTAATAGCATAAA
1 CTATCTAAACTGTTAAAATAGAATAATAAATACAATTTTGCATTTTGATCTTTTAATAGCATAAA
* * * *
2981427 AAATTTTAAATAGACATAAACGATAATTTTTTCACACATATAAACCGTGCAAA-CTAAGTTCAAT
66 AAATTCTAAACAGACATAAACGATAACTTTTTCACACATATAAACCGTGAAAATC-AAGTTCAAT
* * * * *** * *
2981491 CATTCAAACAAGTTTAATATCATTTATTTAAGCTATCTAAACTGTTAAAATGGAATAATAAAAGC
130 CATTCAAACAAGTTTAATATAATGTATTGAAGCTATCTAAAATGTTAAAACATAAAAAT-AATGC
* ** * * *
2981556 AAATTTGCATTTTGGCCTTTTAATGGCATAAAAAAGT-AATAAATAGACATAACCAATAACTTTT
194 AAAATAACATTTT-TCCTTTTAATGACATAAAAAAGTCAA-AAA-AGACATAAACAATAAC-TTT
*
2981620 TTCACAC--ATCAATCATGAAAATCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATT-AA
255 TTCACACATATCAATCATGAAAATCAAGTTCAATTATTCGGATAAGTTTAATATCATGTATTAAA
*
2981682 G
320 A
* * * * * *
2981683 CTATCTAAACTATTAAAATATAA-ATATAACTAC-ATATTTACATTTTTGCTC-GTTAAT-G-AT
1 CTATCTAAACTGTTAAAATAGAATA-ATAAATACAAT-TTTGCA-TTTTGATCTTTTAATAGCAT
* * ** * *
2981743 ACAACAAAGTTCTAAAAAGATATAAATAATAAC-TTTTCACACATATCAACCGTGAAAATTAAGT
63 A-AA-AAA-TTCTAAACAGACATAAACGATAACTTTTTCACACATATAAACCGTGAAAATCAAGT
* * * *
2981807 TCAATCATTCAAGCAAGTTTAATATAATGTATTGAAGCTATCCAAACTGTTAAAACAAAAAAATA
125 TCAATCATTCAAACAAGTTTAATATAATGTATTGAAGCTATCTAAAATGTTAAAACATAAAAATA
* * * * *
2981872 ACTACATATTTACATTTTTGCCTTTTAATGACACAAAAA
190 A-TGCAAAATAACATTTTT-CCTTTTAATGACATAAAAA
2981911 GTGCTAAACG
Statistics
Matches: 719, Mismatches: 123, Indels: 65
0.79 0.14 0.07
Matches are distributed among these distances:
319 3 0.00
320 8 0.01
321 155 0.22
322 77 0.11
323 153 0.21
324 121 0.17
325 5 0.01
326 41 0.06
327 65 0.09
328 82 0.11
329 7 0.01
330 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (320 bp):
CTATCTAAACTGTTAAAATAGAATAATAAATACAATTTTGCATTTTGATCTTTTAATAGCATAAA
AAATTCTAAACAGACATAAACGATAACTTTTTCACACATATAAACCGTGAAAATCAAGTTCAATC
ATTCAAACAAGTTTAATATAATGTATTGAAGCTATCTAAAATGTTAAAACATAAAAATAATGCAA
AATAACATTTTTCCTTTTAATGACATAAAAAAGTCAAAAAAGACATAAACAATAACTTTTTCACA
CATATCAATCATGAAAATCAAGTTCAATTATTCGGATAAGTTTAATATCATGTATTAAAA
Found at i:2984886 original size:21 final size:21
Alignment explanation
Indices: 2984847--2984887 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2984837 TTTTTTCAAA
* *
2984847 GGATTATTCAAGGCGTTTTTT
1 GGATTATTCAAAGCATTTTTT
*
2984868 GGATTATTTAAAGCATTTTT
1 GGATTATTCAAAGCATTTTT
2984888 GGCTAGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (21 bp):
GGATTATTCAAAGCATTTTTT
Found at i:2985218 original size:176 final size:174
Alignment explanation
Indices: 2984862--2985273 Score: 436
Period size: 176 Copynumber: 2.3 Consensus size: 174
2984852 ATTCAAGGCG
* * * ** * *
2984862 TTTTTTGGATTATTTAAAGCATTTTTGGCTAGAAACGCCTTACATAATCCCTTATAAAATAGGGT
1 TTTTTTGGATTATTTAAGGTATTTTTGGC-AAAAATACCTTACATAATCCTTTATAAAATAAGGT
* ** * *
2984927 TATTCAAGGGGTTTTTGGCTAAAAATACATTCAATAATCTCTTTCAATTTTTTCAAGTTATTATT
65 TACTCAAGACGTTTTTGGCAAAAAATACATTCAATAATCTCTTTCAATTTTTTCAAGTAATTATT
* * * *
2984992 CTAGTTATTTTTGGCAAAAAACACCTTGAATAGTCCCATACCATT
130 CAAGTCATTTTTGGCAAAAAACAACTTGAATACTCCCATACCATT
* *
2985037 TTTTTTAGGATTATTCAAGGTATTTTTGGCAATAAATACCTTGCATAATCCTTTATAAAATAAGG
1 TTTTTT-GGATTATTTAAGGTATTTTTGGCAA-AAATACCTTACATAATCCTTTATAAAATAAGG
* * * * *
2985102 TTACTCAAGACGTTTTTGATCAAAAAATACCTTTAATAAT-TTTTTTAATTTTTATCAGAG-AAT
64 TTACTCAAGACGTTTTTG-GCAAAAAATACATTCAATAATCTCTTTCAATTTTT-TCA-AGTAAT
* * *
2985165 TATTCCAAG-CGTTTTTGGCTAAAAACAACTTGAATAACTCCC-TACTATT
126 TATT-CAAGTCATTTTTGGCAAAAAACAACTTGAAT-ACTCCCATACCATT
* * * * *
2985214 TTTTTTGGATTATTTAAGGTGTTTTTAGCCAAAAATATCTTACATAATTCTTTACAAAAT
1 TTTTTTGGATTATTTAAGGTATTTTT-GGCAAAAATACCTTACATAATCCTTTATAAAAT
2985274 GAGATTATTA
Statistics
Matches: 196, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
175 7 0.04
176 115 0.59
177 64 0.33
178 10 0.05
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (174 bp):
TTTTTTGGATTATTTAAGGTATTTTTGGCAAAAATACCTTACATAATCCTTTATAAAATAAGGTT
ACTCAAGACGTTTTTGGCAAAAAATACATTCAATAATCTCTTTCAATTTTTTCAAGTAATTATTC
AAGTCATTTTTGGCAAAAAACAACTTGAATACTCCCATACCATT
Found at i:2985401 original size:60 final size:60
Alignment explanation
Indices: 2985290--2985438 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 60
2985280 ATTAAAGGTA
* * * *
2985290 TTTTTGGCTAAAAATGCCTTCAATGATCCCTCCAATTTTTATTGGAGATTATTGCAGATG
1 TTTTTGGCTAAAAACGCCTTCAATAATCCCTCCAATTTTTAGTGAAGATTATTGCAGATG
* **
2985350 TTTTTGGCT-AAAACGCCTTCAATAATCCCTTTCAATTTTT-GTGAAGAATTATT-CAAGGCG
1 TTTTTGGCTAAAAACGCCTTCAATAATCCC-TCCAATTTTTAGTGAAG-ATTATTGC-AGATG
* * * *
2985410 TTTTTAGCCAAAAATGCCTTGAATAATCC
1 TTTTTGGCTAAAAACGCCTTCAATAATCC
2985439 TCTATCTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 23 0.31
60 34 0.46
61 17 0.23
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (60 bp):
TTTTTGGCTAAAAACGCCTTCAATAATCCCTCCAATTTTTAGTGAAGATTATTGCAGATG
Found at i:2985450 original size:61 final size:57
Alignment explanation
Indices: 2985359--2985481 Score: 131
Period size: 57 Copynumber: 2.1 Consensus size: 57
2985349 GTTTTTGGCT
*
2985359 AAAACGCCTTCAATAATCCCTTTCAATTTTTGTGAAGAATTATTCAAGGCGTTTTTAGCCA
1 AAAACGCCTTCAATAATCCCTATCAATTTTT-T--AG-ATTATTCAAGGCGTTTTTAGCCA
* * * * *
2985420 AAAATGCCTTGAATAATCCTCTATC-TTTTTTTAGATTATTCAAGGTGTTTTTGGCCA
1 AAAACGCCTTCAATAATCC-CTATCAATTTTTTAGATTATTCAAGGCGTTTTTAGCCA
*
2985477 GAAAC
1 AAAAC
2985482 ACTTTGAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
57 24 0.45
58 2 0.04
60 1 0.02
61 22 0.42
62 4 0.08
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (57 bp):
AAAACGCCTTCAATAATCCCTATCAATTTTTTAGATTATTCAAGGCGTTTTTAGCCA
Found at i:2987758 original size:2 final size:2
Alignment explanation
Indices: 2987751--2987783 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2987741 AGTTGTGTCA
*
2987751 AT AT AT AT AT AT AT AT AT AT AT TT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2987784 TATGAAGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:2988930 original size:31 final size:28
Alignment explanation
Indices: 2988891--2988964 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 28
2988881 TAAAAAAATT
2988891 ATTTATTAATAATATATTATCAAATGATTTA
1 ATTTATTAATAATATATTAT---ATGATTTA
* *
2988922 TTTTATTAATAA-A-ATTATATTATTTA
1 ATTTATTAATAATATATTATATGATTTA
*
2988948 ATTCATTAATAATATAT
1 ATTTATTAATAATATAT
2988965 AAAATTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 17 0.46
27 1 0.03
28 2 0.05
29 5 0.14
30 1 0.03
31 11 0.30
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTTATTAATAATATATTATATGATTTA
Found at i:2991082 original size:6 final size:6
Alignment explanation
Indices: 2991071--2991100 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
2991061 GGGGTAAATA
2991071 CCTATT CCTATT CCTATT CCTATT CCTATT
1 CCTATT CCTATT CCTATT CCTATT CCTATT
2991101 GCAACTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
CCTATT
Found at i:2994424 original size:2 final size:2
Alignment explanation
Indices: 2994417--2994449 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2994407 ATATTTTCAA
2994417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2994450 AAGACTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2995534 original size:443 final size:436
Alignment explanation
Indices: 2994715--2995594 Score: 1643
Period size: 443 Copynumber: 2.0 Consensus size: 436
2994705 CAAGTACCAG
2994715 TGCCCAAAAACACACACTCTGCAGTCCACCGGCCGCAATCCAAGTTATCCCTGCTGGAAATGGAT
1 TGCCCAAAAACACACACTCTGCAGTCCACCGGCCGCAATCCAAGTTATCCCTGCTGGAAATGGAT
2994780 TGTAAGTGTAGGTGTTCCAGGGCTTTTGTTTTCTGGTGCATCGTGTTGTCTTTGATACATGTCTC
66 TGTAAGTGTAGGTGTTCCAGGGCTTTTGTTTTCTGGTGCATCGTGTTGTCTTTGATACATGTCTC
2994845 ATTGGGTTCCAAGGCTACGCATTTAAAATGGGAAGTGGAATTAGGTCTCCAGATTGTCTGGAACA
131 ATTGGGTTCCAAGGCTACGCATTTAAAATGGGAAGTGGAATTAGGTCTCCAGATTGTCTGGAACA
2994910 TGTTGTGATGGGTATCAATGGCCAGTTTCCAGGGCCGACTATCAGGGCTAAAGCCGGAGACCCGA
196 TGTTGTGATGGGTATCAATGGCCAGTTTCCAGGGCCGACTATCAGGGCTAAAGCCGGAGACCCGA
2994975 TTGTTGTGGAACTCACTAGTAAGCTGCACACCGAAGGAGTTGTTATTCACTGGCATGGAATCAGA
261 TTGTTGTGGAACTCACTAGTAAGCTGCACACCGAAGGAGTTGTTATTCACTGGCATGGAATCAGA
*
2995040 CAGGTTTGCCATTTTCACTCTCTTTACACAAATAATTATATGTGCAAGAAAATAATGTCTTTGCA
326 CAGGTTTGCCATTTTCACTCTCTTTACACAAATAATTATATGTGCAAGAAAATAATGTCTTTACA
2995105 TACGAAGTAGTGCCACTGCCATATTCTTGATCTGTAAAATGTTGTT
391 TACGAAGTAGTGCCACTGCCATATTCTTGATCTGTAAAATGTTGTT
*
2995151 TGCCCAAAAACACACACTCTGCAGTCCACCGGCCGCAATCCAAGTTATCCCTGTTGGAAATGGAT
1 TGCCCAAAAACACACACTCTGCAGTCCACCGGCCGCAATCCAAGTTATCCCTGCTGGAAATGGAT
*
2995216 TGTAAGTGTAGTTGTTCCAGGGCTTTTGTTTTCTGGTGCATCGTGTTGTCTTTGATACATGTCTC
66 TGTAAGTGTAGGTGTTCCAGGGCTTTTGTTTTCTGGTGCATCGTGTTGTCTTTGATACATGTCTC
*
2995281 ATTGGTTTCCAAGGCTACGCATTTAAAATGGGAAGTGGAATACATGTATAGGTCTCCAGATTGTC
131 ATTGGGTTCCAAGGCTACGCATTTAAAATGGGAAGTGG---A-A--T-TAGGTCTCCAGATTGTC
2995346 TGGAACATGTTGTGATGGGTATCAATGGCCAGTTTCCAGGGCCGACTATCAGGGCTAAAGCCGGA
189 TGGAACATGTTGTGATGGGTATCAATGGCCAGTTTCCAGGGCCGACTATCAGGGCTAAAGCCGGA
* *
2995411 GACCCGATTGTTGTGGAACTCACTAGTAAGCTTCACACCGAAGGAGTTGTTTTTCACTGGCATGG
254 GACCCGATTGTTGTGGAACTCACTAGTAAGCTGCACACCGAAGGAGTTGTTATTCACTGGCATGG
2995476 AATCAGACAGGTTTGCCATTTTCACTCTCTTTACACAAATAATTATATGTGCAAGAAAATAATGT
319 AATCAGACAGGTTTGCCATTTTCACTCTCTTTACACAAATAATTATATGTGCAAGAAAATAATGT
2995541 CTTTACATACGAAGTAGTGCCACTGCCATATTCTTGATCTGTAAAATGTTGTT
384 CTTTACATACGAAGTAGTGCCACTGCCATATTCTTGATCTGTAAAATGTTGTT
2995594 T
1 T
2995595 TCATCAGCTT
Statistics
Matches: 431, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
436 165 0.38
439 1 0.00
440 1 0.00
442 1 0.00
443 263 0.61
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (436 bp):
TGCCCAAAAACACACACTCTGCAGTCCACCGGCCGCAATCCAAGTTATCCCTGCTGGAAATGGAT
TGTAAGTGTAGGTGTTCCAGGGCTTTTGTTTTCTGGTGCATCGTGTTGTCTTTGATACATGTCTC
ATTGGGTTCCAAGGCTACGCATTTAAAATGGGAAGTGGAATTAGGTCTCCAGATTGTCTGGAACA
TGTTGTGATGGGTATCAATGGCCAGTTTCCAGGGCCGACTATCAGGGCTAAAGCCGGAGACCCGA
TTGTTGTGGAACTCACTAGTAAGCTGCACACCGAAGGAGTTGTTATTCACTGGCATGGAATCAGA
CAGGTTTGCCATTTTCACTCTCTTTACACAAATAATTATATGTGCAAGAAAATAATGTCTTTACA
TACGAAGTAGTGCCACTGCCATATTCTTGATCTGTAAAATGTTGTT
Found at i:2999961 original size:22 final size:21
Alignment explanation
Indices: 2999925--3000022 Score: 76
Period size: 22 Copynumber: 4.6 Consensus size: 21
2999915 CACAAATCAA
* *
2999925 TAATAACATATTAATAGATAAT
1 TAATAACTTAGTAATA-ATAAT
**
2999947 TAATAACTTAGTAATTAATTGT
1 TAATAACTTAGTAA-TAATAAT
*
2999969 TAAAAACTTA--AAT-ATAAT
1 TAATAACTTAGTAATAATAAT
*
2999987 TAGTATAACTTAGTAATAATCAT
1 TA--ATAACTTAGTAATAATAAT
*
3000010 TGATAACTTAGTA
1 TAATAACTTAGTA
3000023 GTAAATTAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
18 5 0.08
19 1 0.02
20 9 0.15
21 11 0.18
22 27 0.45
23 7 0.12
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (21 bp):
TAATAACTTAGTAATAATAAT
Found at i:3000038 original size:22 final size:22
Alignment explanation
Indices: 2999984--3000103 Score: 120
Period size: 22 Copynumber: 5.5 Consensus size: 22
2999974 ACTTAAATAT
*
2999984 AATTAGT-ATAACTTAGTAAT-
1 AATTAGTGATAACTTAGTAGTA
* *
3000004 AATCATTGATAACTTAGTAGTA
1 AATTAGTGATAACTTAGTAGTA
*
3000026 AATTAGTGATAACTTAATAGTA
1 AATTAGTGATAACTTAGTAGTA
* * *
3000048 AATTAATGATGATTTAGTAGTA
1 AATTAGTGATAACTTAGTAGTA
**
3000070 AA-TAGTTGATAACTTTTTAGTA
1 AATTAG-TGATAACTTAGTAGTA
*
3000092 AATTAGTAATAA
1 AATTAGTGATAA
3000104 TATAATAATA
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
20 5 0.06
21 14 0.17
22 58 0.73
23 3 0.04
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (22 bp):
AATTAGTGATAACTTAGTAGTA
Found at i:3000233 original size:22 final size:22
Alignment explanation
Indices: 3000157--3000292 Score: 76
Period size: 22 Copynumber: 6.1 Consensus size: 22
3000147 ATATACTTGT
* *
3000157 AATTACATAATAATATAGTAATA
1 AATTA-ATAATAATTTAATAATA
* ** * *
3000180 AATCAAGGATAACTTAACAA-A
1 AATTAATAATAATTTAATAATA
* * *
3000201 AAATAAGTGATAATTTAATAATT
1 AATTAA-TAATAATTTAATAATA
* * * *
3000224 AATTATTGATAACTTAGTAATA
1 AATTAATAATAATTTAATAATA
* * *
3000246 AATTAATAACAATTTGATAGTA
1 AATTAATAATAATTTAATAATA
* *
3000268 AATTAGTAATAATTTAATAGTA
1 AATTAATAATAATTTAATAATA
3000290 AAT
1 AAT
3000293 CAATTTTAGT
Statistics
Matches: 83, Mismatches: 28, Indels: 5
0.72 0.24 0.04
Matches are distributed among these distances:
21 5 0.06
22 70 0.84
23 8 0.10
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
AATTAATAATAATTTAATAATA
Found at i:3000372 original size:61 final size:61
Alignment explanation
Indices: 3000262--3000381 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 61
3000252 TAACAATTTG
* ** ** *
3000262 ATAGTAAATTAGTAATAATTTAATAGTAAATCAATTTTAGTTTAATAGTAATTAATTGACA
1 ATAGTAAATCAGTAATAATTTAATAGTAAATCAATAATAAATTAATAGTAAATAATTGACA
* *
3000323 ATAGTAAATCA-TAAATAATTTAGTAGTAAATCAATAATAAATTAGTAGTAAATAATTGA
1 ATAGTAAATCAGT-AATAATTTAATAGTAAATCAATAATAAATTAATAGTAAATAATTGA
3000382 TAATTTAGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 49 0.98
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (61 bp):
ATAGTAAATCAGTAATAATTTAATAGTAAATCAATAATAAATTAATAGTAAATAATTGACA
Found at i:3000402 original size:22 final size:22
Alignment explanation
Indices: 3000324--3000571 Score: 112
Period size: 22 Copynumber: 11.4 Consensus size: 22
3000314 TAATTGACAA
**
3000324 TAGTAAATCATAAATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* * *
3000346 TAGTAAATCAATAATAAATTAG
1 TAGTAAATCATTGATAATTTAG
*
3000368 TAGTAAATAATTGATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* * * *
3000390 TAGTTAATCATTGAAAACTTAA
1 TAGTAAATCATTGATAATTTAG
* * *
3000412 AAGTAAAT--TCGTATAACTTAG
1 TAGTAAATCATTG-ATAATTTAG
* * ** *
3000433 TAGTCAATCATCGATAACATAA
1 TAGTAAATCATTGATAATTTAG
* * * * *
3000455 TAGTTAATAAGTGATAACTTAA
1 TAGTAAATCATTGATAATTTAG
* *
3000477 TAATAAATCA-TGTATAATTTAA
1 TAGTAAATCATTG-ATAATTTAG
*
3000499 TA-TAAAT--TTGTAATAACTTAG
1 TAGTAAATCATTG--ATAATTTAG
* * **
3000520 TAATTAATCATAAATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* * *
3000542 TGGTAAATCAATGATAATTTTG
1 TAGTAAATCATTGATAATTTAG
*
3000564 TACTAAAT
1 TAGTAAAT
3000572 AATCAAAAAT
Statistics
Matches: 171, Mismatches: 46, Indels: 18
0.73 0.20 0.08
Matches are distributed among these distances:
20 4 0.02
21 29 0.17
22 134 0.78
23 3 0.02
24 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.37
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAG
Found at i:3000449 original size:65 final size:65
Alignment explanation
Indices: 3000359--3000484 Score: 146
Period size: 65 Copynumber: 1.9 Consensus size: 65
3000349 TAAATCAATA
* ** * * *
3000359 ATAAATTAGTAGTAAATAATTGATAATTTAGTAGTTAATCATTGAAAACTTAA-AAGTAAATTCG
1 ATAAATTAGTAGTAAATAATCGATAACATAATAGTTAATAAGTGAAAACTTAATAA-TAAATTCG
3000423 T
65 T
* * * *
3000424 ATAACTTAGTAGTCAATCATCGATAACATAATAGTTAATAAGTGATAACTTAATAATAAAT
1 ATAAATTAGTAGTAAATAATCGATAACATAATAGTTAATAAGTGAAAACTTAATAATAAAT
3000485 CATGTATAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 48 0.96
66 2 0.04
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (65 bp):
ATAAATTAGTAGTAAATAATCGATAACATAATAGTTAATAAGTGAAAACTTAATAATAAATTCGT
Found at i:3000616 original size:36 final size:36
Alignment explanation
Indices: 3000567--3000637 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
3000557 AATTTTGTAC
3000567 TAAATAATCAAAAAT-TAAGTAATAAATCAATGATAG
1 TAAATAATCAAAAATATAA-TAATAAATCAATGATAG
* *
3000603 TAAATATAT-AAAAATATAATAGTAAATCATTGATA
1 TAAATA-ATCAAAAATATAATAATAAATCAATGATA
3000638 ATTTAGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 26 0.84
37 5 0.16
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (36 bp):
TAAATAATCAAAAATATAATAATAAATCAATGATAG
Found at i:3000920 original size:44 final size:44
Alignment explanation
Indices: 3000783--3000998 Score: 151
Period size: 44 Copynumber: 5.0 Consensus size: 44
3000773 GGTAAATTGG
* * * *
3000783 TAGTAAATTAATT-ATAATTTTATA-TTAATCA-TCAATAACTTAG
1 TAGTAAA-TAATTCATAACTTAATAGTAAATCATTC-ATAACTTAA
* * * *
3000826 TGGTAAATCA-TCAATAATTTAATAG-AAATCATTCATAATTTAA
1 TAGTAAATAATTC-ATAACTTAATAGTAAATCATTCATAACTTAA
* * *
3000869 TAATAAATCATTCATAACTTAATGGTAAATCATTCATCAA-TTAGA
1 TAGTAAATAATTCATAACTTAATAGTAAATCATTCAT-AACTTA-A
* * * * *
3000914 -AGTAAATAATTGATAATTTACTAGTAAATTATTGATAACTTAA
1 TAGTAAATAATTCATAACTTAATAGTAAATCATTCATAACTTAA
* * *
3000957 TAGTAAATAATTAATAACTTAATTA-TCAATCATTAATAACTT
1 TAGTAAATAATTCATAACTTAA-TAGTAAATCATTCATAACTT
3000999 TTGTGACACT
Statistics
Matches: 138, Mismatches: 24, Indels: 21
0.75 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 49 0.36
44 81 0.59
45 5 0.04
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (44 bp):
TAGTAAATAATTCATAACTTAATAGTAAATCATTCATAACTTAA
Found at i:3000953 original size:66 final size:65
Alignment explanation
Indices: 3000791--3000979 Score: 174
Period size: 66 Copynumber: 2.9 Consensus size: 65
3000781 GGTAGTAAAT
* * *
3000791 TAATT-ATAATTTTAT-ATTAATCA-TCAATAACTTAGTGGTAAATCATCAATAATTTAATAGAA
1 TAATTCATAATTTAATAATAAATCATTC-ATAACTTAATGGTAAATCATCAATAATTTAATAGAA
3000853 A
65 A
*
3000854 TCATTCATAATTTAATAATAAATCATTCATAACTTAATGGTAAATCATTC-ATCAA-TTAGA-AG
1 TAATTCATAATTTAATAATAAATCATTCATAACTTAATGGTAAATCA-TCAAT-AATTTA-ATAG
3000916 TAAA
63 -AAA
* * * * * * * * *
3000920 TAATTGATAATTTACTAGTAAATTATTGATAACTTAATAGTAAATAATTAATAACTTAAT
1 TAATTCATAATTTAATAATAAATCATTCATAACTTAATGGTAAATCATCAATAATTTAAT
3000980 TATCAATCAT
Statistics
Matches: 103, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
63 4 0.04
64 9 0.09
65 36 0.35
66 54 0.52
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.39
Consensus pattern (65 bp):
TAATTCATAATTTAATAATAAATCATTCATAACTTAATGGTAAATCATCAATAATTTAATAGAAA
Found at i:3000991 original size:22 final size:22
Alignment explanation
Indices: 3000816--3000998 Score: 122
Period size: 22 Copynumber: 8.4 Consensus size: 22
3000806 ATTAATCATC
* * * *
3000816 AATAACTTAGTGGTAAATCATC
1 AATAACTTAATAGTAAATAATT
* *
3000838 AATAATTTAATAG-AAATCATT
1 AATAACTTAATAGTAAATAATT
* * * *
3000859 CATAATTTAATAATAAATCATT
1 AATAACTTAATAGTAAATAATT
* * *
3000881 CATAACTTAATGGTAAATCATT
1 AATAACTTAATAGTAAATAATT
*
3000903 CATCAA-TTAGA-AGTAAATAATT
1 AAT-AACTTA-ATAGTAAATAATT
* * * *
3000925 GATAATTTACTAGTAAATTATT
1 AATAACTTAATAGTAAATAATT
*
3000947 GATAACTTAATAGTAAATAATT
1 AATAACTTAATAGTAAATAATT
* *
3000969 AATAACTTAATTA-TCAATCATT
1 AATAACTTAA-TAGTAAATAATT
3000991 AATAACTT
1 AATAACTT
3000999 TTGTGACACT
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
21 20 0.15
22 110 0.81
23 5 0.04
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
AATAACTTAATAGTAAATAATT
Done.